Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 48 of 135
Found at i:12577751 original size:25 final size:25
Alignment explanation
Indices: 12577706--12577778 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
12577696 ATTTTTTTAA
* *
12577706 AATATAAAATTATTAAATTTATTTT
1 AATATAAAATAATTAAAATTATTTT
*
12577731 AA-A-ATAAT--TTAAAATT-TTTT
1 AATATAAAATAATTAAAATTATTTT
*
12577751 AAATATAAAATTATTAAAATTATTTT
1 -AATATAAAATAATTAAAATTATTTT
12577777 AA
1 AA
12577779 AATTATAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
20 4 0.10
21 9 0.23
22 1 0.03
23 8 0.21
24 1 0.03
25 12 0.31
26 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATATAAAATAATTAAAATTATTTT
Found at i:12577758 original size:21 final size:21
Alignment explanation
Indices: 12577710--12577784 Score: 58
Period size: 20 Copynumber: 3.9 Consensus size: 21
12577700 TTTTAAAATA
* *
12577710 TAAAATTA-TTAAATTTATTT
1 TAAAATAATTTAAAATTATTT
12577730 TAAAATAATTTAAAATT-TTT
1 TAAAATAATTTAAAATTATTT
12577750 T-AAAT-A--TAAAATTA--T
1 TAAAATAATTTAAAATTATTT
*
12577765 TAAAATTATTTTAAAATTAT
1 TAAAA-TAATTTAAAATTAT
12577785 AATCATCATC
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
15 2 0.05
16 10 0.23
17 1 0.02
18 1 0.02
19 4 0.09
20 19 0.43
21 7 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAAATAATTTAAAATTATTT
Found at i:12578572 original size:31 final size:29
Alignment explanation
Indices: 12578537--12578638 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 29
12578527 ATTAAAATTA
*
12578537 TTTAATAATTTTATTATTTCAAAAATATAAT
1 TTTAATAATTTTA-TATTTTAAAAA-ATAAT
12578568 TTTAATAATTTTATATTTTAAAAAATAA-
1 TTTAATAATTTTATATTTTAAAAAATAAT
* * **
12578596 TTAAAAAAAATTATATTTTAAAAAAATAAT
1 TTTAATAATTTTATATTTT-AAAAAATAAT
12578626 TTTAATAATTTTA
1 TTTAATAATTTTA
12578639 AAATTATTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 15 0.25
29 13 0.22
30 19 0.32
31 13 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
TTTAATAATTTTATATTTTAAAAAATAAT
Found at i:12578581 original size:28 final size:27
Alignment explanation
Indices: 12578537--12578638 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 27
12578527 ATTAAAATTA
12578537 TTTAATAATTTTATTATTTCAAAAATATAAT
1 TTTAATAATTTTA-T-TTT-AAAAA-ATAAT
12578568 TTTAATAATTTTATATTTTAAAAAATAAT
1 TTTAATAA-TTT-TATTTTAAAAAATAAT
** * *
12578597 TAAAAAAAATTATATTTTAAAAAAATAAT
1 T-TTAATAATTTTATTTT-AAAAAATAAT
12578626 TTTAATAATTTTA
1 TTTAATAATTTTA
12578639 AAATTATTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
28 14 0.24
29 19 0.32
30 9 0.15
31 11 0.19
32 4 0.07
33 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTAATAATTTTATTTTAAAAAATAAT
Found at i:12591527 original size:23 final size:23
Alignment explanation
Indices: 12591464--12591529 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
12591454 TTGCACAATC
*
12591464 GATGTTTATTGTTGTATGTTTGT
1 GATGTTTATTGTTGTATATTTGT
** *
12591487 GAT-TTTAAGGTT-TAATATTTTT
1 GATGTTTATTGTTGT-ATATTTGT
*
12591509 TATGTTTATTGTTGTATATTT
1 GATGTTTATTGTTGTATATTT
12591530 AATATGAAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.03
22 15 0.45
23 16 0.48
24 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.62
Consensus pattern (23 bp):
GATGTTTATTGTTGTATATTTGT
Found at i:12592864 original size:24 final size:24
Alignment explanation
Indices: 12592833--12592955 Score: 165
Period size: 24 Copynumber: 5.1 Consensus size: 24
12592823 ACAGACAATA
* * *
12592833 TTAGCTCTCATGAGCCCAGGATGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
12592857 TTAGCTCTTACGAGCCCAAAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
* **
12592881 TTAGCTCTTGCGAGCTAAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
12592905 TTAGCTCTTACGAGCTCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
12592929 TTAGCTCTTACGAGCCCAGAATAG
1 TTAGCTCTTACGAGCCCAGAATGG
12592953 TTA
1 TTA
12592956 ACCAGTATAC
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 87 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:12593113 original size:82 final size:82
Alignment explanation
Indices: 12592965--12593120 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 82
12592955 AACCAGTATA
* * *
12592965 CAATGCTGCTCACACAAGCTGATGAGAATTCACGACATACGCGAAGACTCAGCCATCAGTACGGT
1 CAATGCAGCTCACACAAGCTGATGAGAATTCACAACATACGCGAAGACTCAGCCATCAGGACGGT
12593030 CTAGAATTTCCCACTCT
66 CTAGAATTTCCCACTCT
** * *
12593047 CAATGCAGCTCACACAAGCTGATGAGAATTTGCAACATACGTGAAGACTCAGCCATC-GGAGGGG
1 CAATGCAGCTCACACAAGCTGATGAGAATTCACAACATACGCGAAGACTCAGCCATCAGGA-CGG
*
12593111 TCTATAATTT
65 TCTAGAATTT
12593121 AGTATTCATT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
81 2 0.03
82 63 0.97
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (82 bp):
CAATGCAGCTCACACAAGCTGATGAGAATTCACAACATACGCGAAGACTCAGCCATCAGGACGGT
CTAGAATTTCCCACTCT
Found at i:12601242 original size:17 final size:17
Alignment explanation
Indices: 12601220--12601253 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12601210 CTAGACGTGG
12601220 ATTTTACACCAAATGAA
1 ATTTTACACCAAATGAA
12601237 ATTTTACACCAAATGAA
1 ATTTTACACCAAATGAA
12601254 GGGTGTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
ATTTTACACCAAATGAA
Found at i:12605505 original size:21 final size:21
Alignment explanation
Indices: 12605478--12605531 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
12605468 CTTGTGCTAG
12605478 ATCTACCGATACAAGT-ATGGT
1 ATCTACCGATACAAGTCAT-GT
* *
12605499 TTCTACCGGTACAAGTCATGT
1 ATCTACCGATACAAGTCATGT
12605520 ATCTACCGATAC
1 ATCTACCGATAC
12605532 CAAAAACTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (21 bp):
ATCTACCGATACAAGTCATGT
Found at i:12614682 original size:6 final size:6
Alignment explanation
Indices: 12614627--12614698 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
12614617 TTAGACTTTG
* * * *
12614627 AATTTA ATTTTA AAGTTTTA AGTTTA AAATT- -ATTTCA AATTTA AACTTA
1 AATTTA AATTTA AA--TTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
*
12614676 AATTTA AA-GTA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA
12614699 GAAATAAATC
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
4 3 0.06
5 4 0.08
6 34 0.68
7 4 0.08
8 5 0.10
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (6 bp):
AATTTA
Found at i:12614712 original size:18 final size:17
Alignment explanation
Indices: 12614674--12614717 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
12614664 AATTTAAACT
* *
12614674 TAAATTTAAAGTAAATT
1 TAAATTTAAAATAAATC
12614691 TAAATTTAGAAATAAATC
1 TAAATTTA-AAATAAATC
*
12614709 TAAAATTAA
1 TAAATTTAA
12614718 TCTAAACTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (17 bp):
TAAATTTAAAATAAATC
Found at i:12620390 original size:17 final size:17
Alignment explanation
Indices: 12620364--12620396 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12620354 AGATTATAAA
*
12620364 TTTAATTAAAAATATTT
1 TTTAAGTAAAAATATTT
12620381 TTTAAGTAAAAATATT
1 TTTAAGTAAAAATATT
12620397 ATTAGAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTAAGTAAAAATATTT
Found at i:12631380 original size:18 final size:18
Alignment explanation
Indices: 12631353--12631394 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
12631343 ATGTACTAAA
*
12631353 AAAT-AAAATGCAGTGAC
1 AAATAAAAATGCAATGAC
12631370 AAATAAAAATGCAATGAC
1 AAATAAAAATGCAATGAC
*
12631388 AACTAAA
1 AAATAAA
12631395 TGAGATGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.17
Consensus pattern (18 bp):
AAATAAAAATGCAATGAC
Found at i:12631541 original size:20 final size:21
Alignment explanation
Indices: 12631504--12631542 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
12631494 TCTTTGTGCT
* *
12631504 TCTTTTTCTTTTTGTCTTTCC
1 TCTTTTTCTTCTTATCTTTCC
12631525 TCTTTTT-TTCTTATCTTT
1 TCTTTTTCTTCTTATCTTT
12631543 GGAGTCAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (21 bp):
TCTTTTTCTTCTTATCTTTCC
Found at i:12649053 original size:15 final size:15
Alignment explanation
Indices: 12649033--12649062 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12649023 ATTAGTTATA
12649033 CTATTCATTCAACAT
1 CTATTCATTCAACAT
*
12649048 CTATTCATTTAACAT
1 CTATTCATTCAACAT
12649063 TCCACATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
CTATTCATTCAACAT
Found at i:12649092 original size:13 final size:13
Alignment explanation
Indices: 12649074--12649099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12649064 CCACATTTCC
12649074 CATTTCAAATGTT
1 CATTTCAAATGTT
12649087 CATTTCAAATGTT
1 CATTTCAAATGTT
12649100 TCTTCTTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
CATTTCAAATGTT
Found at i:12650562 original size:24 final size:24
Alignment explanation
Indices: 12650530--12650575 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12650520 TGTATGACGA
*
12650530 AAATGAAAACAACTAAACCTAAGG
1 AAATAAAAACAACTAAACCTAAGG
**
12650554 AAATAAAAATGACTAAACCTAA
1 AAATAAAAACAACTAAACCTAA
12650576 TTTACAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.61, C:0.15, G:0.09, T:0.15
Consensus pattern (24 bp):
AAATAAAAACAACTAAACCTAAGG
Found at i:12653413 original size:30 final size:29
Alignment explanation
Indices: 12653201--12653447 Score: 140
Period size: 30 Copynumber: 8.3 Consensus size: 29
12653191 GAGGAAAAAC
* * * * *
12653201 GGGGTCAAAAATGAAATTTTGGAAATTTT
1 GGGGTCAAAACTTAATTTTTAGAAAGTTT
* * * * *
12653230 GGTGCCAAAACATAATTTTT-GGAAGTTCA
1 GGGGTCAAAACTTAATTTTTAGAAAGTT-T
* * * *
12653259 GGGGTCAAATCTAAATTTTTAGGAAGTTCA
1 GGGGTCAAAACTTAATTTTTAGAAAGTT-T
* * * *
12653289 GAGGTC-AAA-TTCAAATTTTTGGGAAGTTC
1 GGGGTCAAAACTT--AATTTTTAGAAAGTTT
* * * *
12653318 GGAGGTTAAATCTGAATTTTTGGAAAGTTT
1 GG-GGTCAAAACTTAATTTTTAGAAAGTTT
* * *
12653348 GGGGTTAAAACTTAATTTATGGAAAGTTT
1 GGGGTCAAAACTTAATTTTTAGAAAGTTT
*
12653377 CGGGGTCAAAACTTAATTTTTAGAAATTTT
1 -GGGGTCAAAACTTAATTTTTAGAAAGTTT
* * *
12653407 GAGGGTCAAAACATAATTGTTAGAAGGTTT
1 G-GGGTCAAAACTTAATTTTTAGAAAGTTT
12653437 GGGGGTCAAAA
1 -GGGGTCAAAA
12653448 TGCAATTTCT
Statistics
Matches: 172, Mismatches: 36, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
28 6 0.03
29 57 0.33
30 105 0.61
31 3 0.02
32 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (29 bp):
GGGGTCAAAACTTAATTTTTAGAAAGTTT
Found at i:12653442 original size:60 final size:59
Alignment explanation
Indices: 12653200--12653447 Score: 155
Period size: 60 Copynumber: 4.2 Consensus size: 59
12653190 TGAGGAAAAA
* * * * * * * * *
12653200 CGGGGTCAAAAATGAAATTTTGGAAATTTTGGTGCCAAAACATAATTT-TTGGAAG-TT
1 CGGGGTCAAAACTTAATTTTTAGAAAGTTTGGGGTCAAAACATAATTTATAGAAAGTTT
* * * * * * * * *
12653257 CAGGGGTCAAATCTAAATTTTTAGGAAGTTCAGAGGTCAAATTCA-AATTTTTGGGAAG-TT
1 C-GGGGTCAAAACTTAATTTTTAGAAAGTT-TGGGGTCAAA-ACATAATTTATAGAAAGTTT
* * * * * * *
12653317 CGGAGGTTAAATCTGAATTTTTGGAAAGTTTGGGGTTAAAACTTAATTTATGGAAAGTTT
1 CGG-GGTCAAAACTTAATTTTTAGAAAGTTTGGGGTCAAAACATAATTTATAGAAAGTTT
* *
12653377 CGGGGTCAAAACTTAATTTTTAGAAATTTTGAGGGTCAAAACATAATTGT-TAGAAGGTTT
1 CGGGGTCAAAACTTAATTTTTAGAAAGTTTG-GGGTCAAAACATAATT-TATAGAAAGTTT
*
12653437 GGGGGTCAAAA
1 CGGGGTCAAAA
12653448 TGCAATTTCT
Statistics
Matches: 148, Mismatches: 34, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
57 1 0.01
58 22 0.15
59 54 0.36
60 70 0.47
61 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (59 bp):
CGGGGTCAAAACTTAATTTTTAGAAAGTTTGGGGTCAAAACATAATTTATAGAAAGTTT
Found at i:12655310 original size:46 final size:46
Alignment explanation
Indices: 12655257--12655344 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
12655247 ATGGTGTCCT
* * * *
12655257 CAATCTGC-CCTTTTTGACTTAAGGGTAAAAGATTGGATGATGGATG
1 CAATCTGCTCC-TCTTGACGTAAGGGTAAAAGACTGAATGATGGATG
*
12655303 CAATCTGCTCCTCTTGACGTAGGGGTAAAAGACTGAATGATG
1 CAATCTGCTCCTCTTGACGTAAGGGTAAAAGACTGAATGATG
12655345 ATGTAACTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
46 34 0.94
47 2 0.06
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
CAATCTGCTCCTCTTGACGTAAGGGTAAAAGACTGAATGATGGATG
Found at i:12655586 original size:123 final size:123
Alignment explanation
Indices: 12655400--12656291 Score: 1162
Period size: 123 Copynumber: 7.3 Consensus size: 123
12655390 TTGTTACTTA
* * * *
12655400 TTTGATCCACTTCT-TCGTATCTCATTAGGAAGATGGGGTTTGAAGTTTCACTCGCATTAAGCTT
1 TTTGACCCACTTCTCT-GTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCGCATTGAGCTT
* * * *
12655464 CGCTTCATTGTTTTGGTCTATTTCTTTGTATCTCATTAGAAAGATGACCACTTCATTAT
65 CGCTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTAT
* * * *
12655523 TTTGACTCACTTCTCTGTATCACATCAAGAATATGGGGTTTGAAGTTTCACTTGCATTGAGCTTC
1 TTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCGCATTGAGCTTC
** ** *
12655588 TATTCATTGTTTTACTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGT
66 GCTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTAT
* * * * *
12655646 TTTGACCCACTTCTCTGTATCTTATCAAGAAGATAGGGTTTAAAGTTTCACTCACATTGAGCTTT
1 TTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCGCATTGAGCTTC
* * * *
12655711 ACTTCATTGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTAT
66 GCTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTAT
* * * * *
12655769 ATTGACCCAGTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCC
1 TTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCGCATTGAGCTTC
** * * * *
12655834 GCTTTGTTGATTTGGTCTACTTCTCTGTATCTTATCAGGAAGATGACCACTTTATTGT
66 GCTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTAT
* *
12655892 TTTGACCCACTTCTCTGTATCTCATC-AGAAAGATGTGGTTTGAAGTTTCACTTGCATTGAGCTT
1 TTTGACCCACTTCTCTGTATCTCATCAAG-AAGATGGGGTTTGAAGTTTCACTCGCATTGAGCTT
* *
12655956 CGCTTCATTATTTTTGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTAT
65 CGCTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTAT
* *
12656015 TTTGACCCACTTCTCTGTATCTCATCAGGAAGAT-GGGTTTAAAGTTTCACTCGCATTGAGCTTC
1 TTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCGCATTGAGCTTC
*
12656079 GCTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGT
66 GCTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTAT
* ** *
12656137 TTTGACCCACTTCTGTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCATATAT-AACTT
1 TTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCGCAT-TGAGCTT
** * * * * * ** **
12656201 TACTTCATTATTTTGGTCTCCTTCTCTGTATCTAATTAGGAAGATAACCTTTTCATCGT
65 CGCTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTAT
* * * *
12656260 TTTAATCCACTTCTCTGTATTTCATCAGGAAG
1 TTTGACCCACTTCTCTGTATCTCATCAAGAAG
12656292 GTGACCACTT
Statistics
Matches: 673, Mismatches: 91, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
122 115 0.17
123 555 0.82
124 3 0.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (123 bp):
TTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCGCATTGAGCTTC
GCTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTAT
Found at i:12656029 original size:48 final size:48
Alignment explanation
Indices: 12655958--12656049 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
12655948 TTGAGCTTCG
* *
12655958 CTTCATTATTTTTGTCTACTTCTCTGTATCTCATCAGGAAGATGACCA
1 CTTCATTATTTTTGCCCACTTCTCTGTATCTCATCAGGAAGATGACCA
12656006 CTTCATTA-TTTTGACCCACTTCTCTGTATCTCATCAGGAAGATG
1 CTTCATTATTTTTG-CCCACTTCTCTGTATCTCATCAGGAAGATG
12656050 GGTTTAAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 5 0.12
48 36 0.88
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (48 bp):
CTTCATTATTTTTGCCCACTTCTCTGTATCTCATCAGGAAGATGACCA
Found at i:12656156 original size:48 final size:48
Alignment explanation
Indices: 12656080--12656171 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
12656070 TTGAGCTTCG
** * *
12656080 CTTCATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCA
1 CTTCATTGTTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGACCA
*
12656128 CTTCATTGTTTTGACCCACTTCTGTGTATCTCATCAAGAAGATG
1 CTTCATTGTTTTGACCCACTTCTCTGTATCTCATCAAGAAGATG
12656172 GGGTTTGAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (48 bp):
CTTCATTGTTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGACCA
Found at i:12656432 original size:48 final size:48
Alignment explanation
Indices: 12656361--12656452 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
12656351 ATTGAGCAAT
* * *
12656361 GCTTCGTTGATTTGGTCCACTTCTTTGTATCTCATCAGAAAGATGACC
1 GCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAGAAAGATGACC
* * *
12656409 GCTTCATTGTTTTGATCCACTTCTCTGTATCTGATCAGGAAGAT
1 GCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAGAAAGAT
12656453 AGGGTTTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (48 bp):
GCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAGAAAGATGACC
Found at i:12656433 original size:159 final size:159
Alignment explanation
Indices: 12656144--12656450 Score: 395
Period size: 159 Copynumber: 1.9 Consensus size: 159
12656134 TGTTTTGACC
* **
12656144 CACTTCTGTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCATATATAACTTTACTTCAT
1 CACTTCTGTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATATAACAATACTTCAT
* * **
12656209 TATTTTGGTCTCCTTCTCTGTATCTAATTAGGAAGATAACCTTTTCATCGTTTTAATCCACTTCT
66 TATTTTGGTCTCCTTCTCTGTATCTAATCAGAAAGATAACCGCTTCATCGTTTTAATCCACTTCT
*
12656274 CTGTATTTCATCAGGAAGGTGACCACTTT
131 CTGTATCTCATCAGGAAGGTGACCACTTT
* * * * *
12656303 CACTTCTTTGTATCTCTTCAAGAAGATGGGGTTTGAAGTTTCACTCACAT-TGAGCAATGCTTCG
1 CACTTCTGTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATAT-AACAATACTTCA
* * * * *
12656367 TTGA-TTTGGTC-CACTTCTTTGTATCTCATCAGAAAGATGACCGCTTCATTGTTTTGATCCACT
65 TT-ATTTTGGTCTC-CTTCTCTGTATCTAATCAGAAAGATAACCGCTTCATCGTTTTAATCCACT
*
12656430 TCTCTGTATCTGATCAGGAAG
128 TCTCTGTATCTCATCAGGAAG
12656451 ATAGGGTTTG
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
158 2 0.02
159 123 0.98
160 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (159 bp):
CACTTCTGTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATATAACAATACTTCAT
TATTTTGGTCTCCTTCTCTGTATCTAATCAGAAAGATAACCGCTTCATCGTTTTAATCCACTTCT
CTGTATCTCATCAGGAAGGTGACCACTTT
Found at i:12656527 original size:123 final size:124
Alignment explanation
Indices: 12656303--12656551 Score: 383
Period size: 123 Copynumber: 2.0 Consensus size: 124
12656293 TGACCACTTT
* * * *
12656303 CACTTCTTTGTATCTCTTCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCAATGCTTCGT
1 CACTTCTCTGTATCTCATCAAGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCAATACTTCGT
* *
12656368 TGATTTGGTCCACTTCTTTGTATCTCATCAGAAAGATGACCGCTTCAT-TGTTTTGATC
66 TGATTTGGTCCACTTCTCTGTATCTAATCAGAAAGATGACCGCTTCATATGTTTTGATC
* * **
12656426 CACTTCTCTGTATCTGATCAGGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCTCTACTTCGT
1 CACTTCTCTGTATCTCATCAAGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCAATACTTCGT
* *
12656491 TGATTTGGTTCACTTCTCTGTATCTAATCAGGAAGATGACCGCTTCATATGTTTTGATC
66 TGATTTGGTCCACTTCTCTGTATCTAATCAGAAAGATGACCGCTTCATATGTTTTGATC
12656550 CA
1 CA
12656552 ACCCACTACA
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
123 101 0.89
124 12 0.11
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (124 bp):
CACTTCTCTGTATCTCATCAAGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCAATACTTCGT
TGATTTGGTCCACTTCTCTGTATCTAATCAGAAAGATGACCGCTTCATATGTTTTGATC
Found at i:12656840 original size:49 final size:49
Alignment explanation
Indices: 12656781--12657062 Score: 157
Period size: 49 Copynumber: 5.8 Consensus size: 49
12656771 ATCTTCAGGG
* * *
12656781 TTAAGATTCGCCGTTGCATCCTCAATCTTTCCCTTCACATCTCT-AGGT
1 TTAAGATTCGCCGTTACAGCCTCAACCTTTCCCTTCACATCTCTAAGGT
* * * * *
12656829 TATAAGGTTCGCCGTTACGGCCTCGACCTTTCTCTTCACATCTTTAAGGT
1 T-TAAGATTCGCCGTTACAGCCTCAACCTTTCCCTTCACATCTCTAAGGT
* * * *
12656879 TTAAGATTCGTCATTGC-GACTTCAATCTGGCTTT--CTT-AC-T-TCTAAGGT
1 TTAAGATTCGCCGTTACAG-CCTCAA-C---CTTTCCCTTCACATCTCTAAGGT
* ** * * * * *
12656927 ATAAGATTCATCGTTGCGGCCTCAACCTTTCCCTTCTCATCTTTAGGGT
1 TTAAGATTCGCCGTTACAGCCTCAACCTTTCCCTTCACATCTCTAAGGT
** * **
12656976 ACAAGATTCGCCGTTACGGCCTCAATATTTCCCTTCACATAC-CTAAGGT
1 TTAAGATTCGCCGTTACAGCCTCAACCTTTCCCTTCACAT-CTCTAAGGT
*** * * * *
12657025 ACGAGATTCACCGTTACGGCCTCAATCTTTCCTTTCAC
1 TTAAGATTCGCCGTTACAGCCTCAACCTTTCCCTTCAC
12657063 GTCTTTAGAG
Statistics
Matches: 185, Mismatches: 35, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
44 4 0.02
46 3 0.02
47 2 0.01
48 29 0.16
49 131 0.71
50 9 0.05
51 3 0.02
53 4 0.02
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (49 bp):
TTAAGATTCGCCGTTACAGCCTCAACCTTTCCCTTCACATCTCTAAGGT
Found at i:12657050 original size:146 final size:146
Alignment explanation
Indices: 12656782--12657052 Score: 310
Period size: 146 Copynumber: 1.9 Consensus size: 146
12656772 TCTTCAGGGT
* * * * * *
12656782 TAAGATTCGCCGTTGCATCCTCAATCTTTCCCTTCACATCTCTAGGTTATAAGGTTCGCCGTTAC
1 TAAGATTCACCGTTGCAGCCTCAACCTTTCCCTTCACATCTCTAGGGTACAAGATTCGCCGTTAC
* * * * ** ** * *
12656847 GGCCTCGACCTTTCTCTTCACATCTTTAAGGTTTAAGATTCGTCATTGCGACTTCAATCTGGCTT
66 GGCCTCAACATTTCCCTTCACATCTCTAAGGTACAAGATTCACCATTACGACCTCAATCTGGCTT
12656912 TCTTACTTCTAAGGTA
131 TCTTACTTCTAAGGTA
* * * *
12656928 TAAGATTCATCGTTGCGGCCTCAACCTTTCCCTTCTCATCTTTAGGGTACAAGATTCGCCGTTAC
1 TAAGATTCACCGTTGCAGCCTCAACCTTTCCCTTCACATCTCTAGGGTACAAGATTCGCCGTTAC
* * * *
12656993 GGCCTCAATATTTCCCTTCACATAC-CTAAGGTACGAGATTCACCGTTACGGCCTCAATCT
66 GGCCTCAACATTTCCCTTCACAT-CTCTAAGGTACAAGATTCACCATTACGACCTCAATCT
12657053 TTCCTTTCAC
Statistics
Matches: 100, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
146 99 0.99
147 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (146 bp):
TAAGATTCACCGTTGCAGCCTCAACCTTTCCCTTCACATCTCTAGGGTACAAGATTCGCCGTTAC
GGCCTCAACATTTCCCTTCACATCTCTAAGGTACAAGATTCACCATTACGACCTCAATCTGGCTT
TCTTACTTCTAAGGTA
Found at i:12657923 original size:19 final size:20
Alignment explanation
Indices: 12657901--12657938 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12657891 TTCATCTTGA
12657901 CCTC-TCATTTTTCTTTTTT
1 CCTCTTCATTTTTCTTTTTT
**
12657920 CCTCTTTTTTTTTCTTTTT
1 CCTCTTCATTTTTCTTTTT
12657939 CTTTTCTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (20 bp):
CCTCTTCATTTTTCTTTTTT
Found at i:12657930 original size:11 final size:11
Alignment explanation
Indices: 12657914--12658008 Score: 65
Period size: 10 Copynumber: 8.5 Consensus size: 11
12657904 CTCATTTTTC
12657914 TTTTTTCCTCT
1 TTTTTTCCTCT
*
12657925 TTTTTT-TTCTT
1 TTTTTTCCTC-T
* *
12657936 TTTCTTTTCTTT
1 TTT-TTTCCTCT
12657948 TCCTTTTTCCT-T
1 T--TTTTTCCTCT
*
12657960 CTTTTTCCT-T
1 TTTTTTCCTCT
12657970 TTTCTTT-CTCT
1 TTT-TTTCCTCT
12657981 TTTTTTCTCTCT
1 TTTTTTC-CTCT
12657993 TTTTTTCC-CT
1 TTTTTTCCTCT
12658003 TTTTTT
1 TTTTTT
12658009 TGGGTGAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
10 26 0.38
11 18 0.26
12 17 0.25
13 6 0.09
14 2 0.03
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTCCTCT
Found at i:12657931 original size:12 final size:11
Alignment explanation
Indices: 12657914--12658009 Score: 76
Period size: 11 Copynumber: 8.6 Consensus size: 11
12657904 CTCATTTTTC
*
12657914 TTTTTTCCTCT
1 TTTTTTTCTCT
12657925 TTTTTTT-TCT
1 TTTTTTTCTCT
12657935 TTTTCTTT-TCT
1 TTTT-TTTCTCT
12657946 TTTCCTTTT-TCCT
1 TTT--TTTTCT-CT
*
12657959 TCTTTTTC-CT
1 TTTTTTTCTCT
12657969 TTTTCTTTCTC-
1 TTTT-TTTCTCT
12657980 TTTTTTTCTCT
1 TTTTTTTCTCT
*
12657991 CTTTTTTTCCCT
1 -TTTTTTTCTCT
12658003 TTTTTTT
1 TTTTTTT
12658010 GGGTGAAATT
Statistics
Matches: 72, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
10 18 0.25
11 34 0.47
12 15 0.21
13 5 0.07
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:12657937 original size:6 final size:6
Alignment explanation
Indices: 12657908--12657984 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
12657898 TGACCTCTCA
*
12657908 TTTTTC TTTTTTCC TCTTTT- TTTTTC TTTTTC -TTTTC TTTTCC TTTTTC
1 TTTTTC -TTTTT-C T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* *
12657957 --CTTC TTTTTCC TTTTTC TTTCTC TTTTT
1 TTTTTC TTTTT-C TTTTTC TTTTTC TTTTT
12657985 TTCTCTCTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
4 3 0.05
5 9 0.16
6 28 0.49
7 12 0.21
8 5 0.09
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:12657973 original size:17 final size:17
Alignment explanation
Indices: 12657908--12657983 Score: 64
Period size: 17 Copynumber: 4.3 Consensus size: 17
12657898 TGACCTCTCA
* *
12657908 TTTTTCTTTTTTCCTCTTT
1 TTTTTCCTTTTT-C-CTTC
* *
12657927 TTTTTTCTTTTT-CTTT
1 TTTTTCCTTTTTCCTTC
12657943 TCTTTTCCTTTTTCCTTC
1 T-TTTTCCTTTTTCCTTC
*
12657961 TTTTTCCTTTTTCTTTC
1 TTTTTCCTTTTTCCTTC
12657978 TCTTTT
1 T-TTTT
12657984 TTTCTCTCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
16 5 0.10
17 26 0.53
18 8 0.16
19 10 0.20
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCCTTTTTCCTTC
Found at i:12658952 original size:6 final size:6
Alignment explanation
Indices: 12658941--12658997 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
12658931 ATCTCGACCC
* *
12658941 TTTTCT TTTTCT TTCT-T TTTTCTT TTTTCT TTTTCT CTTTC- -TTTCT
1 TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT
12658987 TTTTCT CTTTT
1 TTTTCT -TTTT
12658998 TTTGACCTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 25 0.58
7 10 0.23
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:12658957 original size:4 final size:4
Alignment explanation
Indices: 12658948--12658988 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
12658938 CCCTTTTCTT
12658948 TTTC TTTC TTT- TTTC TTT- TTTC TTT- TTCTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TTTC TTTC TTT
12658989 TTCTCTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 8 0.24
4 23 0.70
5 2 0.06
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:12658964 original size:7 final size:7
Alignment explanation
Indices: 12658952--12658999 Score: 69
Period size: 7 Copynumber: 6.4 Consensus size: 7
12658942 TTTCTTTTTC
12658952 TTTCTTT
1 TTTCTTT
12658959 TTTCTTT
1 TTTCTTT
12658966 TTTCTTT
1 TTTCTTT
12658973 TTCTCTTT
1 TT-TCTTT
12658981 CTTTCTTT
1 -TTTCTTT
12658989 TTCTCTTT
1 TT-TCTTT
12658997 TTT
1 TTT
12659000 TGACCTCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 19 0.50
8 17 0.45
9 2 0.05
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTCTTT
Found at i:12658969 original size:24 final size:23
Alignment explanation
Indices: 12658942--12658996 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
12658932 TCTCGACCCT
*
12658942 TTTCTTTTTCTTTCTTTTTTCTT
1 TTTCTCTTTCTTTCTTTTTTCTT
12658965 TTT-TCTTT-TTCTCTTTCTTTCTT
1 TTTCTCTTTCTT-TCTTT-TTTCTT
12658988 TTTCTCTTT
1 TTTCTCTTT
12658997 TTTTGACCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 2 0.07
22 9 0.32
23 12 0.43
24 5 0.18
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTCTCTTTCTTTCTTTTTTCTT
Found at i:12658975 original size:30 final size:31
Alignment explanation
Indices: 12658941--12658999 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
12658931 ATCTCGACCC
*
12658941 TTTTCTTTTTCTTTCTTTTT-TCTTTTTTCT
1 TTTTCTCTTTCTTTCTTTTTCTCTTTTTTCT
12658971 TTTTCTCTTTCTTTCTTTTTCTCTTTTTT
1 TTTTCTCTTTCTTTCTTTTTCTCTTTTTT
12659000 TGACCTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (31 bp):
TTTTCTCTTTCTTTCTTTTTCTCTTTTTTCT
Found at i:12658997 original size:24 final size:23
Alignment explanation
Indices: 12658941--12658998 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 23
12658931 ATCTCGACCC
12658941 TTTTCTTTTTCTTTCTTTTTTCTT
1 TTTTCTTTTTC-TTCTTTTTTCTT
12658965 TTTTCTTTTTC-TCTTTCTTTCTT
1 TTTTCTTTTTCTTCTTT-TTTCTT
12658988 TTTCTCTTTTT
1 TTT-TCTTTTT
12658999 TTGACCTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.16
23 9 0.28
24 18 0.56
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTCTTTTTCTTCTTTTTTCTT
Found at i:12661945 original size:30 final size:29
Alignment explanation
Indices: 12661883--12662117 Score: 111
Period size: 30 Copynumber: 7.9 Consensus size: 29
12661873 GCCAAAACAT
** * *
12661883 AATTTTTAAAAGTTCAGGGGTTAAATCTA
1 AATTTTTGGAAGTTTAGGGGTCAAATCTA
12661912 AATTTTTAGGAAGTTT-GGAGGTCAAAT-TCA
1 AATTTTT-GGAAGTTTAGG-GGTCAAATCT-A
*
12661942 AATTTTTGGAAAGTTTAGGGGTTAAATCTA
1 AATTTTTGG-AAGTTTAGGGGTCAAATCTA
* * * *
12661972 AATTTTTGGAAAG-TTCGAGGGTTAAAACTT
1 AATTTTTGG-AAGTTTAG-GGGTCAAATCTA
* * * * * *
12662002 AATTTGTGGAAAGTTTAAGTGTTAAAACTT
1 AATTTTTGG-AAGTTTAGGGGTCAAATCTA
* * * *
12662032 AATTTTTGGAAATTTTA-GGGTTAAAACTT
1 AATTTTTGG-AAGTTTAGGGGTCAAATCTA
* * *
12662061 AATTTTTAGAAAG-TTCGAGGGTCAAATCCA
1 AATTTTT-GGAAGTTTAG-GGGTCAAATCTA
* *
12662091 AATTTCTGGAAAGTTCGAGGGGTCAAA
1 AATTTTTGG-AAGTT-TAGGGGTCAAA
12662118 ACGTAATTTC
Statistics
Matches: 166, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.01
29 36 0.22
30 113 0.68
31 14 0.08
32 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (29 bp):
AATTTTTGGAAGTTTAGGGGTCAAATCTA
Found at i:12661986 original size:60 final size:60
Alignment explanation
Indices: 12661876--12662126 Score: 228
Period size: 60 Copynumber: 4.2 Consensus size: 60
12661866 TTTTGGTGCC
* * * *
12661876 AAAACATAATTTTT-AAAAGTTCAGGGGTTAAATCTAAATTTTTAGG-AAGTTTG-GAGG-T
1 AAAACTTAATTTTTGGAAAGTTTAGGGGTTAAATCTAAATTTTT-GGAAAGTTCGAG-GGTT
*
12661934 CAAA-TTCAAATTTTTGGAAAGTTTAGGGGTTAAATCTAAATTTTTGGAAAGTTCGAGGGTT
1 AAAACTT--AATTTTTGGAAAGTTTAGGGGTTAAATCTAAATTTTTGGAAAGTTCGAGGGTT
* * * * * **
12661995 AAAACTTAATTTGTGGAAAGTTTAAGTGTTAAAACTTAATTTTTGGAAA-TTTTAGGGTT
1 AAAACTTAATTTTTGGAAAGTTTAGGGGTTAAATCTAAATTTTTGGAAAGTTCGAGGGTT
* * * * * *
12662054 AAAACTTAATTTTTAGAAAG-TTCGAGGGTCAAATCCAAATTTCTGGAAAGTTCGAGGGGTC
1 AAAACTTAATTTTTGGAAAGTTTAG-GGGTTAAATCTAAATTTTTGGAAAGTTCGA-GGGTT
*
12662115 AAAACGTAATTT
1 AAAACTTAATTT
12662127 CCAAATATAA
Statistics
Matches: 156, Mismatches: 27, Indels: 17
0.78 0.14 0.09
Matches are distributed among these distances:
57 1 0.01
58 5 0.03
59 53 0.34
60 75 0.48
61 20 0.13
62 2 0.01
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (60 bp):
AAAACTTAATTTTTGGAAAGTTTAGGGGTTAAATCTAAATTTTTGGAAAGTTCGAGGGTT
Found at i:12662095 original size:89 final size:90
Alignment explanation
Indices: 12661942--12662105 Score: 240
Period size: 89 Copynumber: 1.8 Consensus size: 90
12661932 GTCAAATTCA
* * * **
12661942 AATTTTTGGAAAGTTTAGGGGTTAAATCTAAATTTTTGGAAAGTTCGAGGGTTAAAACTTAATTT
1 AATTTTTGGAAAGTTTAGGGGTTAAAACTAAATTTTTAGAAAGTTCGAGGGTCAAAACCAAATTT
*
12662007 GTGGAAAGTTTAAGTGTTAAAACTT
66 CTGGAAAGTTTAAGTGTTAAAACTT
* * *
12662032 AATTTTTGGAAATTTTA-GGGTTAAAACTTAATTTTTAGAAAGTTCGAGGGTCAAATCCAAATTT
1 AATTTTTGGAAAGTTTAGGGGTTAAAACTAAATTTTTAGAAAGTTCGAGGGTCAAAACCAAATTT
12662096 CTGGAAAGTT
66 CTGGAAAGTT
12662106 CGAGGGGTCA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 49 0.75
90 16 0.25
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (90 bp):
AATTTTTGGAAAGTTTAGGGGTTAAAACTAAATTTTTAGAAAGTTCGAGGGTCAAAACCAAATTT
CTGGAAAGTTTAAGTGTTAAAACTT
Found at i:12665601 original size:27 final size:27
Alignment explanation
Indices: 12665566--12665656 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
12665556 AATGGTGGTC
* *
12665566 ATGAAGAACTCTGAA-AGAACAATATGT
1 ATGACGAACTCTGAAGA-AACAATATAT
* * *
12665593 ATGATGAACTCTGAAGAAACAAAATCT
1 ATGACGAACTCTGAAGAAACAATATAT
* *
12665620 ATGACAAACTCTGAAGAAACAGTATAT
1 ATGACGAACTCTGAAGAAACAATATAT
12665647 ATGACGAACT
1 ATGACGAACT
12665657 ATGATGGAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.22
Consensus pattern (27 bp):
ATGACGAACTCTGAAGAAACAATATAT
Found at i:12665692 original size:27 final size:27
Alignment explanation
Indices: 12665619--12665692 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
12665609 AAACAAAATC
* *
12665619 TATGACAAACTCTGAAGAAACAGTATA
1 TATGACAAACTCTGAAGGAACAGTAGA
* * * * *
12665646 TATGACGAACTATGATGGAACGGTAGG
1 TATGACAAACTCTGAAGGAACAGTAGA
*
12665673 TATGGCAAACTCTGAAGGAA
1 TATGACAAACTCTGAAGGAA
12665693 AATGCCTTGC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (27 bp):
TATGACAAACTCTGAAGGAACAGTAGA
Found at i:12666880 original size:40 final size:40
Alignment explanation
Indices: 12666825--12666905 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
12666815 TTGCATAACC
12666825 TCAGTTGGTCTATCTTCTCCAAAATATCCATATTTTTGTG
1 TCAGTTGGTCTATCTTCTCCAAAATATCCATATTTTTGTG
12666865 TCAGTTGGTCTATCTTCTCCAAAATATCCATATTTTTGTG
1 TCAGTTGGTCTATCTTCTCCAAAATATCCATATTTTTGTG
12666905 T
1 T
12666906 ATCTGACTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (40 bp):
TCAGTTGGTCTATCTTCTCCAAAATATCCATATTTTTGTG
Found at i:12672095 original size:21 final size:21
Alignment explanation
Indices: 12672071--12672110 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12672061 TTGAAAGCCC
* *
12672071 AAAATAGTTGAGTTAGAAGCT
1 AAAATAGTGGAGCTAGAAGCT
12672092 AAAATAGTGGAGCTAGAAG
1 AAAATAGTGGAGCTAGAAG
12672111 AATTGTTACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.28, T:0.23
Consensus pattern (21 bp):
AAAATAGTGGAGCTAGAAGCT
Found at i:12683383 original size:24 final size:24
Alignment explanation
Indices: 12683356--12683432 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
12683346 ATAATCTTTT
12683356 ATATTAATATTTTATTAATTTTAA
1 ATATTAATATTTTATTAATTTTAA
* *
12683380 ATATTTTGAA-A-ATTA-TAATCTTT-T
1 ATA--TT-AATATTTTATTAAT-TTTAA
12683404 ATATTAATATTTTATTAATTTTAA
1 ATATTAATATTTTATTAATTTTAA
12683428 ATATT
1 ATATT
12683433 TTTAAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
21 2 0.05
22 3 0.07
23 6 0.15
24 19 0.46
25 6 0.15
26 3 0.07
27 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (24 bp):
ATATTAATATTTTATTAATTTTAA
Found at i:12683384 original size:18 final size:16
Alignment explanation
Indices: 12683359--12683434 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 16
12683349 ATCTTTTATA
12683359 TTAATATTTTATTAATT
1 TTAATATTTTA-TAATT
*
12683376 TTAAATATTTTGAAAATT
1 TT-AATATTTT-ATAATT
* *
12683394 ATAATCTTTTAT-A--
1 TTAATATTTTATAATT
12683407 TTAATATTTTATTAATT
1 TTAATATTTTA-TAATT
12683424 TTAAATATTTT
1 TT-AATATTTT
12683435 TAAAAATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
13 9 0.20
14 1 0.02
15 2 0.04
16 1 0.02
17 11 0.24
18 21 0.46
19 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (16 bp):
TTAATATTTTATAATT
Found at i:12683389 original size:48 final size:48
Alignment explanation
Indices: 12683337--12683439 Score: 197
Period size: 48 Copynumber: 2.1 Consensus size: 48
12683327 TTTAATAATA
12683337 TTGAAAATTATAATCTTTTATATTAATATTTTATTAATTTTAAATATT
1 TTGAAAATTATAATCTTTTATATTAATATTTTATTAATTTTAAATATT
12683385 TTGAAAATTATAATCTTTTATATTAATATTTTATTAATTTTAAATATT
1 TTGAAAATTATAATCTTTTATATTAATATTTTATTAATTTTAAATATT
*
12683433 TTTAAAA
1 TTGAAAA
12683440 ATAAAAATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (48 bp):
TTGAAAATTATAATCTTTTATATTAATATTTTATTAATTTTAAATATT
Found at i:12692085 original size:28 final size:27
Alignment explanation
Indices: 12692029--12692084 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
12692019 TTTAGTCATA
* *
12692029 TAATAAATTATTAATATAATTTATATTT
1 TAATAAATTATTAATAT-ATTCAAATTT
12692057 TAATAAATTATTTAATAT-TTCAAATTT
1 TAATAAATTA-TTAATATATTCAAATTT
12692084 T
1 T
12692085 TTTTAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.32
28 10 0.40
29 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
TAATAAATTATTAATATATTCAAATTT
Found at i:12692109 original size:15 final size:15
Alignment explanation
Indices: 12692089--12692118 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12692079 AATTTTTTTT
12692089 AATAATAAATTTAAA
1 AATAATAAATTTAAA
*
12692104 AATAATAATTTTAAA
1 AATAATAAATTTAAA
12692119 TAATGTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAATAAATTTAAA
Found at i:12692174 original size:15 final size:15
Alignment explanation
Indices: 12692156--12692189 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
12692146 ATTCAATATT
*
12692156 AATATTTTAATAATA
1 AATATATTAATAATA
12692171 AATATATTAATAATA
1 AATATATTAATAATA
12692186 AATA
1 AATA
12692190 ATTTGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:12703233 original size:17 final size:18
Alignment explanation
Indices: 12703211--12703248 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
12703201 TTGCATTTTT
12703211 ATTTGTCACTGCATTT-C
1 ATTTGTCACTGCATTTGC
* *
12703228 ATTTGTTAGTGCATTTGC
1 ATTTGTCACTGCATTTGC
12703246 ATT
1 ATT
12703249 GTAGTTGCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (18 bp):
ATTTGTCACTGCATTTGC
Found at i:12703853 original size:17 final size:17
Alignment explanation
Indices: 12703823--12703869 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
12703813 AAAAATTCAC
*
12703823 AAAAAGAAAAAAAAAAGA
1 AAAAAG-AAGAAAAAAGA
*
12703841 AAAAAGAAGAAAACAGA
1 AAAAAGAAGAAAAAAGA
12703858 AAAGAAG-AGAAA
1 AAA-AAGAAGAAA
12703870 TATATTGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGAAAAAAGA
Found at i:12706376 original size:5 final size:5
Alignment explanation
Indices: 12706368--12706392 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12706358 ATAAAATAAA
12706368 AGTTG AGTTG AGTTG AGTTG AGTTG
1 AGTTG AGTTG AGTTG AGTTG AGTTG
12706393 TAGAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
AGTTG
Found at i:12708244 original size:22 final size:22
Alignment explanation
Indices: 12708202--12708243 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
12708192 ATTCACAAGT
12708202 TTTCTTACTCATGCTTCTTTTG
1 TTTCTTACTCATGCTTCTTTTG
**
12708224 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGCTTCTTTT
12708244 TCTTTTTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.10, C:0.21, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGCTTCTTTTG
Found at i:12711152 original size:4 final size:4
Alignment explanation
Indices: 12711143--12711168 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
12711133 ACAACTTCTT
12711143 AACA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AA
12711169 TAATCCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:12713354 original size:43 final size:43
Alignment explanation
Indices: 12713293--12713378 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
12713283 AACCTGTGGT
12713293 TCCCAAGATGTTGGGAGACTATTCACAACTTTTTCACCATCTC
1 TCCCAAGATGTTGGGAGACTATTCACAACTTTTTCACCATCTC
*
12713336 TCCCAAGATGTTGGGAGACTATTCACATCTTTTTCACCATCTC
1 TCCCAAGATGTTGGGAGACTATTCACAACTTTTTCACCATCTC
12713379 CTTGTTGGGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (43 bp):
TCCCAAGATGTTGGGAGACTATTCACAACTTTTTCACCATCTC
Found at i:12719796 original size:21 final size:22
Alignment explanation
Indices: 12719766--12719807 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
12719756 ACGCACATAT
12719766 TTTCTTACTCATGCTTCTTTTG
1 TTTCTTACTCATGCTTCTTTTG
**
12719788 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGCTTCTTTT
12719808 CTTTTTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.10, C:0.21, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGCTTCTTTTG
Found at i:12725966 original size:15 final size:14
Alignment explanation
Indices: 12725943--12725981 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
12725933 TATTTTCAAT
*
12725943 TTTTATTTTATTTG
1 TTTTATTTTACTTG
12725957 TTTTACTTTTACTTG
1 TTTTA-TTTTACTTG
*
12725972 TTTTGTTTTA
1 TTTTATTTTA
12725982 AATTTTACGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (14 bp):
TTTTATTTTACTTG
Found at i:12728719 original size:15 final size:15
Alignment explanation
Indices: 12728701--12728731 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12728691 AAAGAAATTG
12728701 AGAAAAAGAAGAAAA
1 AGAAAAAGAAGAAAA
12728716 AGAAAAAGAAGAAAA
1 AGAAAAAGAAGAAAA
12728731 A
1 A
12728732 AATTTATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAGAAAA
Found at i:12730741 original size:18 final size:19
Alignment explanation
Indices: 12730708--12730745 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
12730698 TTTTATTCAA
12730708 GGTATCGATAATATTTTATT
1 GGTATCGATAATA-TTTATT
12730728 GGTATCGA-AA-ATTTATT
1 GGTATCGATAATATTTATT
12730745 G
1 G
12730746 TAAGCTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 2 0.11
20 8 0.44
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (19 bp):
GGTATCGATAATATTTATT
Found at i:12748865 original size:15 final size:15
Alignment explanation
Indices: 12748842--12748875 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12748832 GCATTTTCAA
* *
12748842 TTTTTCTTTTATTTG
1 TTTTACTTTTACTTG
12748857 TTTTACTTTTACTTG
1 TTTTACTTTTACTTG
12748872 TTTT
1 TTTT
12748876 GTTTTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTACTTTTACTTG
Found at i:12748889 original size:21 final size:21
Alignment explanation
Indices: 12748835--12748889 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
12748825 TGTCGACGCA
* *
12748835 TTTTCAATTTTTCTTTTATTTG
1 TTTT-AATTTTACTTGTATTTG
*
12748857 TTTTACTTTTACTTGT-TTTG
1 TTTTAATTTTACTTGTATTTG
12748877 TTTTAAATTTTAC
1 TTTT-AATTTTAC
12748890 GCATGAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 8 0.29
21 16 0.57
22 4 0.14
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTAATTTTACTTGTATTTG
Found at i:12750749 original size:3 final size:3
Alignment explanation
Indices: 12750735--12750775 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
12750725 GAAGGCTAAG
12750735 AGA AGTA AGA AGA AGA AGA AGA AGA AGA A-A ATGA A-A AGA AG
1 AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA AG
12750776 GACCCTACTG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 4 0.12
3 25 0.74
4 5 0.15
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (3 bp):
AGA
Found at i:12793019 original size:18 final size:18
Alignment explanation
Indices: 12792996--12793030 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12792986 CCCAATAAAA
12792996 ATACCT-AAATGCCCAATT
1 ATACCTGAAA-GCCCAATT
12793014 ATACCTGAAAGCCCAAT
1 ATACCTGAAAGCCCAAT
12793031 ACAAGCCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.23
Consensus pattern (18 bp):
ATACCTGAAAGCCCAATT
Found at i:12793607 original size:19 final size:18
Alignment explanation
Indices: 12793570--12793609 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12793560 ATATGTATAA
*
12793570 AAATAAAAAATACAGAAT
1 AAATAAAAAAAACAGAAT
*
12793588 AAATAAAAAAAATAGCAAT
1 AAATAAAAAAAACAG-AAT
12793607 AAA
1 AAA
12793610 AAATCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (18 bp):
AAATAAAAAAAACAGAAT
Found at i:12794579 original size:30 final size:30
Alignment explanation
Indices: 12794415--12794579 Score: 133
Period size: 30 Copynumber: 5.5 Consensus size: 30
12794405 CTTTTTTATT
* *
12794415 TAAAAATTTGGTTTTGACCCTCAAACTTT-
1 TAAAAATTTGATTTTGACCCTTAAACTTTC
** * *
12794444 TCAAAAATTCAAATTTGACCCCTT-AATTTTC
1 T-AAAAATTTGATTTTGA-CCCTTAAACTTTC
12794475 TAAAAA-TTGCATTTTTGA-CCTTAAACTTTC
1 TAAAAATTTG-A-TTTTGACCCTTAAACTTTC
***
12794505 TAAAAATCACATTTT-ATCCCTTAAACTTTC
1 TAAAAATTTGATTTTGA-CCCTTAAACTTTC
** **
12794535 TAAAAATTACATTTTGACCCCCAAACTTTC
1 TAAAAATTTGATTTTGACCCTTAAACTTTC
12794565 TAAAAATTTGATTTT
1 TAAAAATTTGATTTT
12794580 TTCCCTATTT
Statistics
Matches: 108, Mismatches: 18, Indels: 19
0.74 0.12 0.13
Matches are distributed among these distances:
28 1 0.01
29 10 0.09
30 86 0.80
31 11 0.10
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (30 bp):
TAAAAATTTGATTTTGACCCTTAAACTTTC
Found at i:12794579 original size:60 final size:60
Alignment explanation
Indices: 12794426--12794572 Score: 174
Period size: 60 Copynumber: 2.5 Consensus size: 60
12794416 AAAAATTTGG
* * * *
12794426 TTTTGACCCTCAAACTTT-TCAAAAATTCAAATTTGACCCCTTAATTTTCTAAAAATTGCAT
1 TTTTGACCCTCAAACTTTCT-AAAAATT-AAATTTTATCCCTTAACTTTCTAAAAATTACAT
* * *
12794487 TTTTGA-CCTTAAACTTTCTAAAAATCACATTTTATCCCTTAAACTTTCTAAAAATTACA-
1 TTTTGACCCTCAAACTTTCTAAAAATTAAATTTTATCCCTT-AACTTTCTAAAAATTACAT
*
12794546 TTTTGACCCCCAAACTTTCTAAAAATT
1 TTTTGACCCTCAAACTTTCTAAAAATT
12794573 TGATTTTTTC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
59 17 0.23
60 49 0.67
61 7 0.10
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.39
Consensus pattern (60 bp):
TTTTGACCCTCAAACTTTCTAAAAATTAAATTTTATCCCTTAACTTTCTAAAAATTACAT
Found at i:12808346 original size:17 final size:17
Alignment explanation
Indices: 12808324--12808356 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
12808314 GTTAATGCAC
12808324 ATTGTCATTGCATTTTT
1 ATTGTCATTGCATTTTT
12808341 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
12808357 AATGTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:12812535 original size:14 final size:14
Alignment explanation
Indices: 12812516--12812542 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12812506 ACTAATCCGT
12812516 TTAATTTTCTTTTG
1 TTAATTTTCTTTTG
12812530 TTAATTTTCTTTT
1 TTAATTTTCTTTT
12812543 ATTTCTTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (14 bp):
TTAATTTTCTTTTG
Found at i:12820072 original size:15 final size:15
Alignment explanation
Indices: 12820049--12820090 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
12820039 AATAACTAGC
*
12820049 AAAAAGAGAAGGAAG
1 AAAAAGAGAAAGAAG
*
12820064 AAGAAGAGAAAGAAG
1 AAAAAGAGAAAGAAG
12820079 AAAAAGAAGAAA
1 AAAAAG-AGAAA
12820091 AGAATGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAAAAGAGAAAGAAG
Found at i:12820087 original size:18 final size:18
Alignment explanation
Indices: 12820064--12820099 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12820054 GAGAAGGAAG
12820064 AAGAAGAGAAAGAA-GAAA
1 AAGAAGA-AAAGAATGAAA
12820082 AAGAAGAAAAGAATGAAA
1 AAGAAGAAAAGAATGAAA
12820100 TGAACCTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (18 bp):
AAGAAGAAAAGAATGAAA
Found at i:12833622 original size:15 final size:14
Alignment explanation
Indices: 12833602--12833648 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 14
12833592 CATATATTTC
12833602 TTTTTTCTTCTTTT
1 TTTTTTCTTCTTTT
*
12833616 ATTTTTTCTTCTTCT
1 -TTTTTTCTTCTTTT
*
12833631 TTCTTTC-TCTTTT
1 TTTTTTCTTCTTTT
12833644 TTTTT
1 TTTTT
12833649 ATAAATGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 9 0.32
14 6 0.21
15 13 0.46
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTCTTTT
Found at i:12833629 original size:18 final size:19
Alignment explanation
Indices: 12833596--12833632 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
12833586 AGACAGCATA
*
12833596 TATTTCTTTTTTCTTCTTT
1 TATTTCTTTCTTCTTCTTT
12833615 TATTT-TTTCTTCTTCTTT
1 TATTTCTTTCTTCTTCTTT
12833633 CTTTCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (19 bp):
TATTTCTTTCTTCTTCTTT
Found at i:12840311 original size:18 final size:18
Alignment explanation
Indices: 12840290--12840327 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12840280 TTGTTGTGGA
12840290 ATAACCAGTTGCATCGAT
1 ATAACCAGTTGCATCGAT
**
12840308 ATAAGTAGTTGCATCGAT
1 ATAACCAGTTGCATCGAT
12840326 AT
1 AT
12840328 TTTTGCTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (18 bp):
ATAACCAGTTGCATCGAT
Found at i:12842351 original size:353 final size:353
Alignment explanation
Indices: 12841706--12842414 Score: 1134
Period size: 353 Copynumber: 2.0 Consensus size: 353
12841696 AAGAAATGAC
*
12841706 TTAAGATGCTCTCTTGCATCTTCATAAGGTAAGCCCGCATATTGCCCATTCGAGTTAAGCATTTG
1 TTAAGATGCTCTCTTGCATCTTCATAAGGTAAGCCCGCATATTACCCATTCGAGTTAAGCATTTG
* * *
12841771 AAACATCACTGATTTCAATTCAAAATTTCCATCTTCTATAGCTGGTCTAATAACCCCTGGTTATA
66 AAACATCACCGATTTCAATTCAAAATTTCCAGCTTCTATAGCTGGTCTAACAACCCCTGGTTATA
* * * * *** *
12841836 ATTATCGAGTATAGGAATAATGGATTCTTTGATTACCCTGTTTTGCACCTATTCTTCTTGTGGAG
131 ATCATCAAGTACAGGAACAACAAATTCTCTGATTACCCTGTTTTGCACCTATTCTTCTTGTGGAG
* * *
12841901 GCAGTGGTATATTATTAATGAGCTGTGGCTACACTAGAGGAACAATATTTTGTGACAGCAATGGT
196 GCAGTGGTATATTATTAACGAGCTGTGGCTACACTAGAGGAACAACATTTTGTGACAACAATGGT
12841966 GGTATATCATTGTTATTTCCAACCATTTTTCTTTGTGCTTGC-TTTTCCTCCGAAGTGTCCTTTC
261 GGTATATCATTGTTATTTCCAACCATTTTTCTTTGTGCTTGCTTTTTCCTCCGAAGTGTCCTTTC
*
12842030 GAGTTCTGGATCAAAACTAACAATATTG
326 AAGTTCTGGATCAAAACTAACAATATTG
12842058 TTAAGATGCTCTCTTGCATCTTCATAAGGTAAGCCCGCATATTACCCATTCGAGTTAAGCATTTG
1 TTAAGATGCTCTCTTGCATCTTCATAAGGTAAGCCCGCATATTACCCATTCGAGTTAAGCATTTG
* * * * *
12842123 AAACATCACCGGTTTCAATTCAAAATTTCTAGCTTGTATAGCTGGTCTAACAACCCTTGGTTGTA
66 AAACATCACCGATTTCAATTCAAAATTTCCAGCTTCTATAGCTGGTCTAACAACCCCTGGTTAT-
**
12842188 AATCATCAAGTACAGGAACAACAAATTCTCTGATTGTCCTGTTTTGCACCTATTCTTCTTGTGGA
130 AATCATCAAGTACAGGAACAACAAATTCTCTGATTACCCTGTTTTGCACCTATTCTTCTTGTGGA
*
12842253 GGC-GATGGTATATTATTAACGAGTTGTGGCTACACTAGAGGAACAACATTTTGTGACAACAATG
195 GGCAG-TGGTATATTATTAACGAGCTGTGGCTACACTAGAGGAACAACATTTTGTGACAACAATG
* * *
12842317 GTTGTATATCATTGTTATTTCCAGCCATTTTTCTTTGTTCTTGCTTTTTCCTCCGAAGTGTCCTT
259 GTGGTATATCATTGTTATTTCCAACCATTTTTCTTTGTGCTTGCTTTTTCCTCCGAAGTGTCCTT
*
12842382 TCAAGTTCTGGATCAAAACTAATAATATTG
324 TCAAGTTCTGGATCAAAACTAACAATATTG
12842412 TTA
1 TTA
12842415 GGATTTATCC
Statistics
Matches: 326, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
352 121 0.37
353 154 0.47
354 51 0.16
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (353 bp):
TTAAGATGCTCTCTTGCATCTTCATAAGGTAAGCCCGCATATTACCCATTCGAGTTAAGCATTTG
AAACATCACCGATTTCAATTCAAAATTTCCAGCTTCTATAGCTGGTCTAACAACCCCTGGTTATA
ATCATCAAGTACAGGAACAACAAATTCTCTGATTACCCTGTTTTGCACCTATTCTTCTTGTGGAG
GCAGTGGTATATTATTAACGAGCTGTGGCTACACTAGAGGAACAACATTTTGTGACAACAATGGT
GGTATATCATTGTTATTTCCAACCATTTTTCTTTGTGCTTGCTTTTTCCTCCGAAGTGTCCTTTC
AAGTTCTGGATCAAAACTAACAATATTG
Found at i:12847129 original size:12 final size:12
Alignment explanation
Indices: 12847098--12847134 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12847088 TTTTTAAAAA
12847098 TATAAAAAATTT
1 TATAAAAAATTT
12847110 TGAT--AAAATTT
1 T-ATAAAAAATTT
12847121 TATAAAAAATTT
1 TATAAAAAATTT
12847133 TA
1 TA
12847135 AAATAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.09
11 8 0.36
12 10 0.45
13 2 0.09
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (12 bp):
TATAAAAAATTT
Found at i:12848043 original size:252 final size:252
Alignment explanation
Indices: 12847564--12848043 Score: 800
Period size: 252 Copynumber: 1.9 Consensus size: 252
12847554 GCTTTTTTTT
* *
12847564 AAAATGAGAGCACTCTACAGTTTTTCACTCAATTTTAACACACCTCACTCCTTCAGTTGGAATAA
1 AAAAAGAGAGCACTCTACAGTTTTTCACCCAATTTTAACACACCTCACTCCTTCAGTTGGAATAA
* *
12847629 TGTCACATATGTGGCGGGATCCGAAAACAGATATTTCATACTTTATTCATAAAAATTTTGATTTA
66 TGTCACATATGTGACGGGATCCGAAAACAGATATTTAATACTTTATTCATAAAAATTTTGATTTA
*
12847694 TATTTATTTAACTGATACTTATAAATATATTATATGAAGTGGGTCGTAGAACGGATATAACGGAA
131 TATTTATTTAACTGATACTTATAAATATATTATATGAAGTGGGTCGTAGAACGGATATAAAGGAA
*
12847759 ATTAGATGGGTCTAGAAACCCACGTGGGTGGTGTGACGGGTTGCTATTTTTTTAGAA
196 ATTAGATGGGTCTAGAAACCCACGTAGGTGGTGTGACGGGTTGCTATTTTTTTAGAA
* * *
12847816 AAAAAGAGAGCACTCTATAGTTTTTCACCCAATTTTAACACTCCTCACTTCTTCAGTTGGAATAA
1 AAAAAGAGAGCACTCTACAGTTTTTCACCCAATTTTAACACACCTCACTCCTTCAGTTGGAATAA
* * * *
12847881 TGTCACATATGTGACGGGGTTCGAAGACAGATATTTAATACTTTTTTCATAAAAAATTTTGATTT
66 TGTCACATATGTGACGGGATCCGAAAACAGATATTTAATACTTTATTCAT-AAAAATTTTGATTT
12847946 ATATTTATTTAACTGATACTTATAAATATATTATATGAAGTGGGTCGTAGAACGGATATAAAGGA
130 ATATTTATTTAACTGATACTTATAAATATATTATATGAAGTGGGTCGTAGAACGGATATAAAGGA
* * *
12848011 AATTAGATGGGTCTGGAGA-CCATGTAGGTGGTG
195 AATTAGATGGGTCTAGAAACCCACGTAGGTGGTG
12848044 AGACAGGAAT
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
252 116 0.55
253 95 0.45
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (252 bp):
AAAAAGAGAGCACTCTACAGTTTTTCACCCAATTTTAACACACCTCACTCCTTCAGTTGGAATAA
TGTCACATATGTGACGGGATCCGAAAACAGATATTTAATACTTTATTCATAAAAATTTTGATTTA
TATTTATTTAACTGATACTTATAAATATATTATATGAAGTGGGTCGTAGAACGGATATAAAGGAA
ATTAGATGGGTCTAGAAACCCACGTAGGTGGTGTGACGGGTTGCTATTTTTTTAGAA
Found at i:12848538 original size:6 final size:6
Alignment explanation
Indices: 12848527--12848552 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12848517 CACACGCCTC
12848527 TCATCT TCATCT TCATCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TC
12848553 TTCTCTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (6 bp):
TCATCT
Found at i:12848853 original size:6 final size:6
Alignment explanation
Indices: 12848842--12848873 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
12848832 CAAAAGGGAA
12848842 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
12848874 TAGGCGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.34, T:0.16
Consensus pattern (6 bp):
GAAGAT
Found at i:12862143 original size:22 final size:22
Alignment explanation
Indices: 12862093--12862171 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
12862083 CTGGGGAAAT
*
12862093 AGTAAGCACACACAGTGCAATCC
1 AGTAGGCACACACAGTGCAAT-C
12862116 AGTAGGCACACACAGTGCAATC
1 AGTAGGCACACACAGTGCAATC
* * * *
12862138 AGTAGGCTCACATAGCGTAAATC
1 AGTAGGCACACACAGTG-CAATC
12862161 AGTAGGCACAC
1 AGTAGGCACAC
12862172 GAGGTGCGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
22 15 0.31
23 34 0.69
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.15
Consensus pattern (22 bp):
AGTAGGCACACACAGTGCAATC
Found at i:12870998 original size:20 final size:20
Alignment explanation
Indices: 12870956--12870998 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
12870946 GCTTTCACAA
* *
12870956 TTAAGCTTAATTAACCTCTT
1 TTAACCTTAATTAACCTCAT
12870976 TTAACCTTAATTAATCCT-AT
1 TTAACCTTAATTAA-CCTCAT
12870996 TTA
1 TTA
12870999 TATTCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (20 bp):
TTAACCTTAATTAACCTCAT
Found at i:12873741 original size:44 final size:44
Alignment explanation
Indices: 12873685--12873770 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
12873675 TTACTTTTCC
** *
12873685 CCAAAATTTTACTCTTACAAACCCGCAAAACTTTTTATTTTCTA
1 CCAAAATTTTACTCCCACAAACCCGCAAAACATTTTATTTTCTA
* *
12873729 CCAAAATTTTACTCCCAGAAACCCTCAAAACATTTTATTTTC
1 CCAAAATTTTACTCCCACAAACCCGCAAAACATTTTATTTTC
12873771 CCCTAAAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (44 bp):
CCAAAATTTTACTCCCACAAACCCGCAAAACATTTTATTTTCTA
Found at i:12873800 original size:30 final size:31
Alignment explanation
Indices: 12873766--12873825 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
12873756 AAACATTTTA
12873766 TTTTCCCCTAAAACTTTTAC-TACCTCCCAC
1 TTTTCCCCTAAAACTTTTACTTACCTCCCAC
* *
12873796 TTTTCTCCTAAAACTTTTACTTTCCTCCCA
1 TTTTCCCCTAAAACTTTTACTTACCTCCCA
12873826 TCCCACACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTTACCTCCCAC
Found at i:12875286 original size:20 final size:19
Alignment explanation
Indices: 12875262--12875315 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
12875252 AAATAAAGAA
*
12875262 ATAAAAATAAAAATTAAAT
1 ATAAAAATAAAAATCAAAT
*
12875281 ACT-AAAATAAAAAAACAAAT
1 A-TAAAAAT-AAAAATCAAAT
12875301 ATAAACAATAAAAAT
1 ATAAA-AATAAAAAT
12875316 AATTGGGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 7 0.25
20 18 0.64
21 3 0.11
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (19 bp):
ATAAAAATAAAAATCAAAT
Found at i:12875312 original size:26 final size:25
Alignment explanation
Indices: 12875260--12875313 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
12875250 ATAAATAAAG
* *
12875260 AAATAAAAATAAAAATTAAATACTA
1 AAATAAAAATAAAAATTAAACAATA
12875285 AAATAAAAA-AACAAATATAAACAATA
1 AAATAAAAATAA-AAAT-TAAACAATA
12875311 AAA
1 AAA
12875314 ATAATTGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 13 0.52
26 10 0.40
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.19
Consensus pattern (25 bp):
AAATAAAAATAAAAATTAAACAATA
Found at i:12875363 original size:16 final size:16
Alignment explanation
Indices: 12875333--12875375 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
12875323 ATTAGGCATG
12875333 AAAATAAAT-AACAAA
1 AAAATAAATAAACAAA
*
12875348 TAAATAAATAAACAAA
1 AAAATAAATAAACAAA
*
12875364 AAAATCAATAAA
1 AAAATAAATAAA
12875376 TTAAATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAAATAAACAAA
Found at i:12875419 original size:105 final size:104
Alignment explanation
Indices: 12875224--12875412 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 104
12875214 AATAAAATGA
12875224 CATGAAAATAAATAACGACAAGATAAATAAATAAAGAAATAAAAATAAAAATTAAATACTAAAAT
1 CATGAAAATAAATAAC-ACAAGATAAATAAATAAAGAAATAAAAATAAAAATTAAATACTAAAAT
12875289 AAAAAAACAAATATAAACAATAAAAATAATTGGGATTAGG
65 AAAAAAACAAATATAAACAATAAAAATAATTGGGATTAGG
* **
12875329 CATGAAAATAAAT-A-ACAA-ATAAATAAATAAA-CAA-AAAAATCAATAAATTAAATGTTAAAA
1 CATGAAAATAAATAACACAAGATAAATAAATAAAGAAATAAAAAT-AA-AAATTAAATACTAAAA
* *
12875389 T-AAATAACTAAATATAAATAATAA
64 TAAAAAAAC-AAATATAAACAATAA
12875413 TAAAAAAGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
99 6 0.08
100 10 0.13
101 42 0.55
102 4 0.05
104 1 0.01
105 13 0.17
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.22
Consensus pattern (104 bp):
CATGAAAATAAATAACACAAGATAAATAAATAAAGAAATAAAAATAAAAATTAAATACTAAAATA
AAAAAACAAATATAAACAATAAAAATAATTGGGATTAGG
Found at i:12876359 original size:45 final size:45
Alignment explanation
Indices: 12876289--12876792 Score: 500
Period size: 45 Copynumber: 11.2 Consensus size: 45
12876279 TGTTGTAACA
* *
12876289 TCAATCTGCCCCTCTGGATTTAGGGGTAAAAGATTGGATTGAGGCT
1 TCAATCTGCCCCTCTAGA-TTAGGGGTAAAAGATTGGATGGAGGCT
** * *
12876335 TCAATCTATCCCTTTAGATTAGGGGTAAAAGATTGGAT-GATGACT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGA-GGCT
* * * * * **
12876380 TCAATTTGCCCCT-TTGAATTAAGGGTAAAATATTGGATAGTTGCT
1 TCAATCTGCCCCTCTAG-ATTAGGGGTAAAAGATTGGATGGAGGCT
* * ** *
12876425 TCAATCTGCCCCTTTGGATTAGGGGTAAAAGGCTGGATGGTGGCT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGAGGCT
* * * *
12876470 TCAATCTACCCCTCT-GAATTAAGGGTAAAAGATTGGATTGTGGCT
1 TCAATCTGCCCCTCTAG-ATTAGGGGTAAAAGATTGGATGGAGGCT
* ** *
12876515 TCAATCTGCTCCTCTAGATTAAAGGTAAAAGATTGGATGGTGGCT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGAGGCT
* *
12876560 TCAATCTGCCCCTCTAAATTAGGGGTAAAAGACTGGAT-GATGGCT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGA-GGCT
* * * *
12876605 TCAGTTTGCCCCTTTAGATTAGAGGTAAAAGATTGGATGGTA-GCT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG-AGGCT
* * * * *
12876650 TCAATCTGTCCCTCTAGATTAGGGGTAAAAGACTAGAT-GATAGTT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGA-GGCT
* * * *
12876695 TCAATCTGCCTCTCTAGAATAGGGGTAAAAGAGTAGATGGCA-GCT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG-AGGCT
* *
12876740 TCAATCTGCCCCTCTAGATTAGGGATAAAAGATTGGATGGTGGCT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGAGGCT
12876785 TCAATCTG
1 TCAATCTG
12876793 TCTCTTTTCG
Statistics
Matches: 381, Mismatches: 63, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.00
44 7 0.02
45 351 0.92
46 20 0.05
47 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
TCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGAGGCT
Found at i:12876536 original size:135 final size:133
Alignment explanation
Indices: 12876289--12876792 Score: 555
Period size: 135 Copynumber: 3.7 Consensus size: 133
12876279 TGTTGTAACA
* * * * *
12876289 TCAATCTGCCCCTCTGGATTTAGGGGTAAAAGATTGGATTGAGGCTTCAATCTATCCCTTTAGAT
1 TCAATCTGCCCCTCTAGA-TTAGGGGTAAAAGACTGGATGGTGGCTTCAATCTACCCCTTTAGAT
* * * * * *
12876354 TAGGGGTAAAAGATTGGATGATGACTTCAATTTGCCCCT-TTGAATTAAGGGTAAAATATTGGAT
65 TA-GGGTAAAAGATTGGATGGTGGCTTCAATCTGCTCCTCTAG-ATTAAGGGTAAAAGATTGGAT
*
12876418 AGTTGCT
128 -GTAGCT
* * * *
12876425 TCAATCTGCCCCTTTGGATTAGGGGTAAAAGGCTGGATGGTGGCTTCAATCTACCCCTCT-GAAT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTGGATGGTGGCTTCAATCTACCCCTTTAG-AT
* *
12876489 TAAGGGTAAAAGATTGGATTGTGGCTTCAATCTGCTCCTCTAGATTAAAGGTAAAAGATTGGATG
65 T-AGGGTAAAAGATTGGATGGTGGCTTCAATCTGCTCCTCTAGATTAAGGGTAAAAGATTGGAT-
*
12876554 GTGGCT
128 GTAGCT
* * * * *
12876560 TCAATCTGCCCCTCTAAATTAGGGGTAAAAGACTGGATGATGGCTTCAGTTTGCCCCTTTAGATT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTGGATGGTGGCTTCAATCTACCCCTTTAGATT
* * * *
12876625 AGAGGTAAAAGATTGGATGGTAGCTTCAATCTG-TCCCTCTAGATTAGGGGTAAAAGACTAGATG
66 AG-GGTAAAAGATTGGATGGTGGCTTCAATCTGCT-CCTCTAGATTAAGGGTAAAAGATTGGATG
*
12876689 ATAGTT
129 -TAGCT
* * * * ** * *
12876695 TCAATCTGCCTCTCTAGAATAGGGGTAAAAGAGTAGATGGCAGCTTCAATCTGCCCCTCTAGATT
1 TCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTGGATGGTGGCTTCAATCTACCCCTTTAGATT
12876760 AGGGATAAAAGATTGGATGGTGGCTTCAATCTG
66 AGGG-TAAAAGATTGGATGGTGGCTTCAATCTG
12876793 TCTCTTTTCG
Statistics
Matches: 314, Mismatches: 46, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
134 7 0.02
135 286 0.91
136 21 0.07
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (133 bp):
TCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTGGATGGTGGCTTCAATCTACCCCTTTAGATT
AGGGTAAAAGATTGGATGGTGGCTTCAATCTGCTCCTCTAGATTAAGGGTAAAAGATTGGATGTA
GCT
Found at i:12876936 original size:49 final size:49
Alignment explanation
Indices: 12876883--12877163 Score: 176
Period size: 49 Copynumber: 5.8 Consensus size: 49
12876873 TCGCTATTAC
* *
12876883 GGCTTTAAACTTTCCCTCTTTAGTTTTAGGGTATTAGATCCACCGTTGT
1 GGCTTTAAACTTTCCCTCTTTAGTTTTAGGGTGTTAGATCCACCGTTAT
* * * * * *
12876932 GGC-TTCAATTTATCCCTTTTTGGTTTTAGGGTGTTAGGTCTACCGTTAT
1 GGCTTTAAACTT-TCCCTCTTTAGTTTTAGGGTGTTAGATCCACCGTTAT
* * * * * * *
12876981 GACTTTAATCTTTCCCTCTTTAATTTTAGGGTGTTAGGTCCGCTGTTGT
1 GGCTTTAAACTTTCCCTCTTTAGTTTTAGGGTGTTAGATCCACCGTTAT
* * * *
12877030 GGCTTTAATA-TTT-GCTC-TTCGATTTTAGGGTGTTAGATCCAACATTAT
1 GGCTTTAA-ACTTTCCCTCTTTAG-TTTTAGGGTGTTAGATCCACCGTTAT
* * * * * * * * * * *
12877078 GACTTTAATCTATCCTTTTTTAGGTTTAGGGTATAAGATCTACCATTAC
1 GGCTTTAAACTTTCCCTCTTTAGTTTTAGGGTGTTAGATCCACCGTTAT
** * * *
12877127 AACTTTAATCTTTTCCT-TTTCGATTTTAGGGTGTTAG
1 GGCTTTAAACTTTCCCTCTTTAG-TTTTAGGGTGTTAG
12877164 GTTTGTTGTT
Statistics
Matches: 173, Mismatches: 51, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
47 2 0.01
48 42 0.24
49 121 0.70
50 8 0.05
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.46
Consensus pattern (49 bp):
GGCTTTAAACTTTCCCTCTTTAGTTTTAGGGTGTTAGATCCACCGTTAT
Found at i:12876994 original size:98 final size:97
Alignment explanation
Indices: 12876885--12877163 Score: 263
Period size: 98 Copynumber: 2.9 Consensus size: 97
12876875 GCTATTACGG
*
12876885 CTTTAAACTTTCCCTCTTTAGTTTTAGGGTATTAGATCCACCGTTGTGGCTTCAAT-TTATCCCT
1 CTTTAATCTTTCCCTCTTTAGTTTTAGGGTATTAGATCCACCGTTGTGGCTTCAATATT-T-CCT
* * * * * * *
12876949 TTTTGGTTTTAGGGTGTTAGGTCTACCGTTATGA
64 CTTCGATTTTAGGGTGTTAGATCCAACATTATGA
* * * * * * *
12876983 CTTTAATCTTTCCCTCTTTAATTTTAGGGTGTTAGGTCCGCTGTTGTGGCTTTAATATTTGCTCT
1 CTTTAATCTTTCCCTCTTTAGTTTTAGGGTATTAGATCCACCGTTGTGGCTTCAATATTTCCTCT
12877048 TCGATTTTAGGGTGTTAGATCCAACATTATGA
66 TCGATTTTAGGGTGTTAGATCCAACATTATGA
* * * * * * * **** * * *
12877080 CTTTAATCTATCCTTTTTTAGGTTTAGGGTATAAGATCTACCATTACAACTTTAATCTTTTCCTT
1 CTTTAATCTTTCCCTCTTTAGTTTTAGGGTATTAGATCCACCGTTGTGGCTTCAAT-ATTTCCTC
12877145 TTCGATTTTAGGGTGTTAG
65 TTCGATTTTAGGGTGTTAG
12877164 GTTTGTTGTT
Statistics
Matches: 145, Mismatches: 34, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
97 69 0.48
98 74 0.51
99 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (97 bp):
CTTTAATCTTTCCCTCTTTAGTTTTAGGGTATTAGATCCACCGTTGTGGCTTCAATATTTCCTCT
TCGATTTTAGGGTGTTAGATCCAACATTATGA
Found at i:12878457 original size:11 final size:11
Alignment explanation
Indices: 12878427--12878457 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
12878417 GGCCCCTCCC
*
12878427 TTTTTTTTCTT
1 TTTTTTTTGTT
12878438 TTTTTTTTGTT
1 TTTTTTTTGTT
12878449 TTTTTTTTG
1 TTTTTTTTG
12878458 CTAGTTTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.90
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:12884057 original size:17 final size:17
Alignment explanation
Indices: 12884015--12884063 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
12884005 AACTAAATTA
12884015 ACAA-AAAAATGCAATG
1 ACAATAAAAATGCAATG
12884031 ACAAAATAAAAATGCAATG
1 AC--AATAAAAATGCAATG
*
12884050 ACAATAAAGATGCA
1 ACAATAAAAATGCA
12884064 TGCAAACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.07
17 11 0.38
18 2 0.07
19 14 0.48
ACGTcount: A:0.61, C:0.12, G:0.12, T:0.14
Consensus pattern (17 bp):
ACAATAAAAATGCAATG
Found at i:12899702 original size:13 final size:13
Alignment explanation
Indices: 12899668--12899717 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
12899658 AAATGACATG
12899668 AAAATAAATAGCAAC
1 AAAATAAATA--AAC
*
12899683 AAGATAAATAAAC
1 AAAATAAATAAAC
*
12899696 AAAATAAATAAATA
1 AAAATAAATAAA-C
12899710 AAAATAAA
1 AAAATAAA
12899718 AATTAAATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 14 0.45
14 8 0.26
15 9 0.29
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAATAAATAAAC
Found at i:12903354 original size:15 final size:14
Alignment explanation
Indices: 12903332--12903367 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
12903322 AAAATTTTCT
12903332 AAAAAATAAAAAAG
1 AAAAAATAAAAAAG
*
12903346 AACAAAATAGAAAAG
1 AA-AAAATAAAAAAG
12903361 AAAAAAT
1 AAAAAAT
12903368 TTAAACGCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.81, C:0.03, G:0.08, T:0.08
Consensus pattern (14 bp):
AAAAAATAAAAAAG
Found at i:12903606 original size:29 final size:28
Alignment explanation
Indices: 12903516--12903661 Score: 134
Period size: 29 Copynumber: 5.0 Consensus size: 28
12903506 AGAAAAAAAC
* *
12903516 GGGGTCAAAATGAAATTTTGGAAAGTTT
1 GGGGTCAAAATGAATTTTTAGAAAGTTT
*
12903544 GGAGGACAAAATGCAA-TTTTAGAAAGTTT
1 GG-GGTCAAAATG-AATTTTTAGAAAGTTT
12903573 GGGGTCAAAATGAGATTTTTAGAAAGTTT
1 GGGGTCAAAATGA-ATTTTTAGAAAGTTT
* *
12903602 GGGGTCCAAAAAGTAATTTTCA-AGAAGTTT
1 GGGGT-CAAAATG-AATTTTTAGA-AAGTTT
* * *
12903632 AGGGGTTAAAATAAAATTTTTAAAAAGTTT
1 -GGGGTCAAAAT-GAATTTTTAGAAAGTTT
12903662 AGTGGTTAAA
Statistics
Matches: 99, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
27 1 0.01
28 12 0.12
29 42 0.42
30 37 0.37
31 7 0.07
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (28 bp):
GGGGTCAAAATGAATTTTTAGAAAGTTT
Found at i:12903669 original size:30 final size:30
Alignment explanation
Indices: 12903616--12903673 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
12903606 TCCAAAAAGT
*
12903616 AATTTTCAAGAAGTTTAGGGGTTAAAATAA
1 AATTTTCAAAAAGTTTAGGGGTTAAAATAA
* *
12903646 AATTTTTAAAAAGTTTAGTGGTTAAAAT
1 AATTTTCAAAAAGTTTAGGGGTTAAAAT
12903674 GCAGGGACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (30 bp):
AATTTTCAAAAAGTTTAGGGGTTAAAATAA
Found at i:12905065 original size:21 final size:22
Alignment explanation
Indices: 12905012--12905065 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
12905002 TGACATGGTT
*
12905012 GCTGACGTGGTAGTGACGTGGC
1 GCTGACGTGGCAGTGACGTGGC
* *
12905034 ACTGATGTGGCAG-GACGTGGC
1 GCTGACGTGGCAGTGACGTGGC
*
12905055 GCTGACATGGC
1 GCTGACGTGGC
12905066 CATGGGGAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.17, C:0.20, G:0.43, T:0.20
Consensus pattern (22 bp):
GCTGACGTGGCAGTGACGTGGC
Found at i:12905712 original size:49 final size:49
Alignment explanation
Indices: 12905636--12906210 Score: 297
Period size: 49 Copynumber: 11.7 Consensus size: 49
12905626 AAACTTTAGG
* * * * * * * *
12905636 GGTATAAGATTCGTCGTTACAGTTTCAATCTTTCACATCACATCTCTAA
1 GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATCATATCTCTAA
* * * *
12905685 GGTATAAGGTTCGCCGTTGTGGCTTCAACCTTTCCCTTCATATCTCCAT
1 GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATCATATCTCTAA
* * * * *
12905734 GGTA-CAGGATTCACCGTTGCGGCCTCAATCTTTCCCATTATTAT-TCTAA
1 GGTATAAGG-TTCGCCGTTGCGGCTTCAACCTTTCCCATCA-TATCTCTAA
* * * *
12905783 GGTATAAGGTTCGCCATTGCGGCTTCAACCTTTCCCTTCATATCTCCAT
1 GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATCATATCTCTAA
** * * * * * * * *
12905832 GGTACCAGATTTGCCGTTGCGGCTTTAATCTTTCCTATCATGTCTTTGA
1 GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATCATATCTCTAA
* * * * * *
12905881 GGTACAAGGTTTGTCGTTGCAGCTTTAACCTTTCCC-TCCATATCT-TCAT
1 GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCAT-CATATCTCT-AA
* * * ** * *
12905930 GGTAT-AGGATTCGCCGTTGCGGCTTCAATCTTTCTCAACACGTCTATGA
1 GGTATAAGG-TTCGCCGTTGCGGCTTCAACCTTTCCCATCATATCTCTAA
* * * * * * * *
12905979 GGTACAAGGTTTGTCATTGCGACTTTAACCTTTCTC-TCCATATCT-TCAT
1 GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCAT-CATATCTCT-AA
* * * * * * * * *
12906028 GGTACAAGATTCGTCATTTCGACTTCAATCTTTCCCATTAT-TTTCCTAA
1 GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATCATATCT-CTAA
***
12906077 GGTATAAGGTTCGTTATTGCGGCTTCAACCTTTCCC-TCCATATCTC-AA
1 GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCAT-CATATCTCTAA
* * * * * * ** *
12906125 TGGTACAAGATTCGTCGTTGTGGCTTTAATCTTTCCCATCACGTCTCTGA
1 -GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATCATATCTCTAA
** * *
12906175 GGTACGAGGTTTGCCATTGCGGCTTCAACCTTTCCC
1 GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCC
12906211 TCCAAACCTG
Statistics
Matches: 394, Mismatches: 112, Indels: 40
0.72 0.21 0.07
Matches are distributed among these distances:
48 17 0.04
49 361 0.92
50 16 0.04
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (49 bp):
GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATCATATCTCTAA
Found at i:12905782 original size:98 final size:98
Alignment explanation
Indices: 12905636--12906214 Score: 524
Period size: 98 Copynumber: 5.9 Consensus size: 98
12905626 AAACTTTAGG
* * * * * * * * *
12905636 GGTATAAGATTCGTCGTTACAGTTTCAATCTTTCACATCA-CATCTCTAAGGTATAAGGTTCGCC
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTATTAT-TCTAAGGTATAAGGTTCGTC
* * *
12905700 GTTGTGGCTTCAACCTTTCCCTTCATATCTCCAT
65 ATTGCGGCTTCAACCTTTCCCTCCATATCTCCAT
* * * *
12905734 GGTACAGGATTCACCGTTGCGGCCTCAATCTTTCCCATTATTATTCTAAGGTATAAGGTTCGCCA
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTATTATTCTAAGGTATAAGGTTCGTCA
*
12905799 TTGCGGCTTCAACCTTTCCCTTCATATCTCCAT
66 TTGCGGCTTCAACCTTTCCCTCCATATCTCCAT
* * * * * * * * *
12905832 GGTACCAGATTTGCCGTTGCGGCTTTAATCTTTCCTATCATGTCTT-TGAGGTACAAGGTTTGTC
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTAT-TATTCTAAGGTATAAGGTTCGTC
* * * *
12905896 GTTGCAGCTTTAACCTTTCCCTCCATATCTTCAT
65 ATTGCGGCTTCAACCTTTCCCTCCATATCTCCAT
* * * * * * *
12905930 GGTATAGGATTCGCCGTTGCGGCTTCAATCTTTCTCA--A-CACGTCTATGAGGTACAAGGTTTG
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTATTA-TTCTA--AGGTATAAGGTTCG
* * * *
12905992 TCATTGCGACTTTAACCTTTCTCTCCATATCTTCAT
63 TCATTGCGGCTTCAACCTTTCCCTCCATATCTCCAT
* * * * *
12906028 GGTACAAGATTCGTCATTTCGACTTCAATCTTTCCCATTATT-TTCCTAAGGTATAAGGTTCGTT
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTATTATT-CTAAGGTATAAGGTTCGTC
*
12906092 ATTGCGGCTTCAACCTTTCCCTCCATATCTCAAT
65 ATTGCGGCTTCAACCTTTCCCTCCATATCTCCAT
* * * * * * * ** * *
12906126 GGTACAAGATTCGTCGTTGTGGCTTTAATCTTTCCCATCACGT-CTCTGAGGTACGAGGTTTGCC
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTA-TTATTCTAAGGTATAAGGTTCGTC
12906190 ATTGCGGCTTCAACCTTTCCCTCCA
65 ATTGCGGCTTCAACCTTTCCCTCCA
12906215 AACCTGTAGA
Statistics
Matches: 393, Mismatches: 77, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
95 1 0.00
96 2 0.01
98 378 0.96
99 8 0.02
100 4 0.01
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (98 bp):
GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTATTATTCTAAGGTATAAGGTTCGTCA
TTGCGGCTTCAACCTTTCCCTCCATATCTCCAT
Found at i:12905999 original size:196 final size:195
Alignment explanation
Indices: 12905659--12906214 Score: 582
Period size: 196 Copynumber: 2.8 Consensus size: 195
12905649 TCGTTACAGT
* * * * * * ** *
12905659 TTCAATCTTTCACATCACATCTCTAAGGTATAAGGTTCGCCGTTGTGGCTTCAACCTTTCCCTTC
1 TTCAATCTTTCCCATCA-TTTTCTAAGGTACAAGGTTCGTCATTGCAGCTTCAACCTTTCCCTCC
* * * * *
12905724 ATATCTCCATGGTACAGGATTCACCGTTGCGGCCTCAATCTTTCCCATTATTA-TTCTA--AGGT
65 ATATCTTCATGGTACAGGATTCGCCGTTGCGGCTTCAATCTTTCCCA--A-CACGTCTATGAGGT
* * * * * *
12905786 ATAAGGTTCGCCATTGCGGCTTCAACCTTTCCCTTCATATCTCCATGGTACCAGATTTGCCGTTG
127 ACAAGGTTTGCCATTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCCATTG
*
12905851 CGGC
192 CGAC
* * * * * *
12905855 TTTAATCTTTCCTATCATGTCTT-TGAGGTACAAGGTTTGTCGTTGCAGCTTTAACCTTTCCCTC
1 TTCAATCTTTCCCATCAT-T-TTCTAAGGTACAAGGTTCGTCATTGCAGCTTCAACCTTTCCCTC
* *
12905919 CATATCTTCATGGTATAGGATTCGCCGTTGCGGCTTCAATCTTTCTCAACACGTCTATGAGGTAC
64 CATATCTTCATGGTACAGGATTCGCCGTTGCGGCTTCAATCTTTCCCAACACGTCTATGAGGTAC
* * * * * * *
12905984 AAGGTTTGTCATTGCGACTTTAACCTTTCTCTCCATATCTTCATGGTACAAGATTCGTCATTTCG
129 AAGGTTTGCCATTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCCATTGCG
12906049 AC
194 AC
* * * *
12906051 TTCAATCTTTCCCATTATTTTCCTAAGGTATAAGGTTCGTTATTGCGGCTTCAACCTTTCCCTCC
1 TTCAATCTTTCCCATCATTTT-CTAAGGTACAAGGTTCGTCATTGCAGCTTCAACCTTTCCCTCC
* * * * * *
12906116 ATATC-TCAATGGTACAAGATTCGTCGTTGTGGCTTTAATCTTTCCCATCACGTCTCTGAGGTAC
65 ATATCTTC-ATGGTACAGGATTCGCCGTTGCGGCTTCAATCTTTCCCAACACGTCTATGAGGTAC
*
12906180 GAGGTTTGCCATTGCGGCTTCAACCTTTCCCTCCA
129 AAGGTTTGCCATTGCGGCTTCAACCTTTCCCTCCA
12906215 AACCTGTAGA
Statistics
Matches: 295, Mismatches: 57, Indels: 16
0.80 0.15 0.04
Matches are distributed among these distances:
193 1 0.00
194 7 0.02
195 3 0.01
196 283 0.96
197 1 0.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.37
Consensus pattern (195 bp):
TTCAATCTTTCCCATCATTTTCTAAGGTACAAGGTTCGTCATTGCAGCTTCAACCTTTCCCTCCA
TATCTTCATGGTACAGGATTCGCCGTTGCGGCTTCAATCTTTCCCAACACGTCTATGAGGTACAA
GGTTTGCCATTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCCATTGCGAC
Found at i:12914153 original size:24 final size:24
Alignment explanation
Indices: 12914126--12914173 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12914116 CAATTGGTCC
*
12914126 TGCAGCTG-TGTTTGCATCTGTTCT
1 TGCAGCTGCT-TTTGCAACTGTTCT
*
12914150 TGCATCTGCTTTTGCAACTGTTCT
1 TGCAGCTGCTTTTGCAACTGTTCT
12914174 AATCTTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (24 bp):
TGCAGCTGCTTTTGCAACTGTTCT
Found at i:12918567 original size:120 final size:118
Alignment explanation
Indices: 12918355--12918665 Score: 365
Period size: 120 Copynumber: 2.6 Consensus size: 118
12918345 TGAAAATTTG
** * **
12918355 GAAAGTTTGTGGGTTAAAATATAATTTTTAGAAAGTTTAGGGTTAAAATGCTATTTTTAGAAAGT
1 GAAAGTTTAAGGGTTAAAATGTAATTTTTAGAAAGTTTAGGGTTAAAATGAGATTTTTAGAAAGT
** * *
12918420 TTAAGGTCTAAAAAGTATTTTATAAGAAGTTTAGGGGTTAAATTTGAATTTTT
66 TTAAGGTCTAAAAACAATTTTATAAGAAGTCTAGGGGTCAAATTTGAATTTTT
* * * **
12918473 AGAAAGTTTAAGGGTCAAAATGTAACTTTTAGAAAGTTTAGAGGTCAAAATGAGATTTTTAGAGT
1 -GAAAGTTTAAGGGTTAAAATGTAATTTTTAGAAAGTTTAG-GGTTAAAATGAGATTTTTAGAAA
** * *
12918538 GTTTGGGGTCTAAACAACAATTTT-TAAGAAGTCTAGGGGTCAATTTTGAGTTTTT
64 GTTTAAGGTCTAAA-AACAATTTTATAAGAAGTCTAGGGGTCAAATTTGAATTTTT
* * *
12918593 GAAAAGTTTAGGGGTTAAAATGAAATTTTTAGAAAGTTTAGGGGTTAAAATGTACA-TTTTAGAA
1 G-AAAGTTTAAGGGTTAAAATGTAATTTTTAGAAAGTTTA-GGGTTAAAATG-AGATTTTTAGAA
12918657 AGTTTAAGG
63 AGTTTAAGG
12918666 ACTTACTAGG
Statistics
Matches: 159, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
119 36 0.23
120 113 0.71
121 10 0.06
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (118 bp):
GAAAGTTTAAGGGTTAAAATGTAATTTTTAGAAAGTTTAGGGTTAAAATGAGATTTTTAGAAAGT
TTAAGGTCTAAAAACAATTTTATAAGAAGTCTAGGGGTCAAATTTGAATTTTT
Found at i:12918662 original size:30 final size:30
Alignment explanation
Indices: 12918355--12918662 Score: 230
Period size: 30 Copynumber: 10.3 Consensus size: 30
12918345 TGAAAATTTG
*
12918355 GAAAGTTT-GTGGGTTAAAATATAATTTTTA
1 GAAAGTTTAG-GGGTTAAAATGTAATTTTTA
12918385 GAAAGTTTA-GGGTTAAAATGCT-ATTTTTA
1 GAAAGTTTAGGGGTTAAAATG-TAATTTTTA
* *
12918414 GAAAGTTTA-AGGTCTAAAAAGT-ATTTTATA
1 GAAAGTTTAGGGGT-TAAAATGTAATTTT-TA
*
12918444 -AGAAGTTTAGGGGTT-AAATTTGAATTTTTA
1 GA-AAGTTTAGGGGTTAAAATGT-AATTTTTA
* * *
12918474 GAAAGTTTAAGGGTCAAAATGTAACTTTTA
1 GAAAGTTTAGGGGTTAAAATGTAATTTTTA
* *
12918504 GAAAGTTTAGAGGTCAAAATG-AGATTTTTA
1 GAAAGTTTAGGGGTTAAAATGTA-ATTTTTA
** **
12918534 GAGTGTTT-GGGGTCTAAACA-ACAATTTTTA
1 GAAAGTTTAGGGGT-TAAA-ATGTAATTTTTA
* * * * *
12918564 -AGAAGTCTAGGGG-TCAATTTTGAGTTTTT-
1 GA-AAGTTTAGGGGTTAAAATGT-AATTTTTA
*
12918593 GAAAAGTTTAGGGGTTAAAATGAAATTTTTA
1 G-AAAGTTTAGGGGTTAAAATGTAATTTTTA
12918624 GAAAGTTTAGGGGTTAAAATGTACA-TTTTA
1 GAAAGTTTAGGGGTTAAAATGTA-ATTTTTA
12918654 GAAAGTTTA
1 GAAAGTTTA
12918663 AGGACTTACT
Statistics
Matches: 222, Mismatches: 33, Indels: 46
0.74 0.11 0.15
Matches are distributed among these distances:
29 49 0.22
30 146 0.66
31 27 0.12
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (30 bp):
GAAAGTTTAGGGGTTAAAATGTAATTTTTA
Found at i:12921174 original size:28 final size:28
Alignment explanation
Indices: 12921143--12921230 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
12921133 ACTTGTATAG
12921143 TGAAGCTGCGAAGTGCGAGCTGTTACAA
1 TGAAGCTGCGAAGTGCGAGCTGTTACAA
* * * *
12921171 TGAATCTGTGAAGTACGAGCTGTCACAA
1 TGAAGCTGCGAAGTGCGAGCTGTTACAA
* * *
12921199 TGAAGCTGCGAAGTGTGAACTCTTACAA
1 TGAAGCTGCGAAGTGCGAGCTGTTACAA
12921227 TGAA
1 TGAA
12921231 TCCGCAAAGT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (28 bp):
TGAAGCTGCGAAGTGCGAGCTGTTACAA
Found at i:12923341 original size:56 final size:56
Alignment explanation
Indices: 12923274--12923386 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
12923264 TATAACATAG
12923274 GATCCACTCAAGGATCTATGAGGGCTAGTGAAATATTTAATGCATTGCTTTAAAAA
1 GATCCACTCAAGGATCTATGAGGGCTAGTGAAATATTTAATGCATTGCTTTAAAAA
12923330 GATCCACTCAAGGATCTATGAGGGCTAGTGAAATATTTAATGCATTGCTTTAAAAA
1 GATCCACTCAAGGATCTATGAGGGCTAGTGAAATATTTAATGCATTGCTTTAAAAA
12923386 G
1 G
12923387 TAAAGTAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (56 bp):
GATCCACTCAAGGATCTATGAGGGCTAGTGAAATATTTAATGCATTGCTTTAAAAA
Found at i:12927297 original size:23 final size:23
Alignment explanation
Indices: 12927270--12927315 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12927260 TCTTGGTGAA
12927270 AGGATTATAGATTTTGTATCCTT
1 AGGATTATAGATTTTGTATCCTT
12927293 AGGATTATAGATTTTGTATCCTT
1 AGGATTATAGATTTTGTATCCTT
12927316 TCTTACCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (23 bp):
AGGATTATAGATTTTGTATCCTT
Found at i:12929737 original size:29 final size:30
Alignment explanation
Indices: 12929678--12929738 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
12929668 TTAATGACAC
* *
12929678 AATAAAATAAAATAACATAATCATGGTAATA
1 AATAAAAT-AAATAACATAATCATAGCAATA
*
12929709 AATAAAAT-AATAATATAATCATAGCAATA
1 AATAAAATAAATAACATAATCATAGCAATA
12929738 A
1 A
12929739 TGATAACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 19 0.70
31 8 0.30
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (30 bp):
AATAAAATAAATAACATAATCATAGCAATA
Found at i:12930156 original size:13 final size:14
Alignment explanation
Indices: 12930123--12930156 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
12930113 ATTAAATGCT
12930123 AAAATAAACAAATA
1 AAAATAAACAAATA
*
12930137 AATATAAAC-AATA
1 AAAATAAACAAATA
12930150 AAAATAA
1 AAAATAA
12930157 TTGAGATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAATAAACAAATA
Found at i:12930467 original size:26 final size:25
Alignment explanation
Indices: 12930438--12930496 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
12930428 GCTTTGAATT
* *
12930438 TTCTTTGAATATATATCTAAAAAAAA
1 TTCTCTGAATAT-TATATAAAAAAAA
*
12930464 TTCTCTGAATGTTATAT-AAAAAAA
1 TTCTCTGAATATTATATAAAAAAAA
12930488 -TCTCTGAAT
1 TTCTCTGAAT
12930497 CTCATTCCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.30
24 7 0.23
25 4 0.13
26 10 0.33
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (25 bp):
TTCTCTGAATATTATATAAAAAAAA
Found at i:12932628 original size:49 final size:49
Alignment explanation
Indices: 12932495--12932931 Score: 371
Period size: 49 Copynumber: 8.9 Consensus size: 49
12932485 CCCTATTTAG
*
12932495 TTTTAAGGGTGTAAGATTCACCGTTGCGGCTTTAATCTGTCCCTCTTCGA
1 TTTT-AGGGTGTAAGATTCACCGTTGCGACTTTAATCTGTCCCTCTTCGA
* * * *
12932545 TTTTAGGAGTGTAAGATTCACCGTTGCGATTTTAATCTATCTCTCTTTGA
1 TTTTAGG-GTGTAAGATTCACCGTTGCGACTTTAATCTGTCCCTCTTCGA
** * *
12932595 TTTTAGGGTGTAAGATTCAGTGTTGCAACTTTAATCTGTCCCTCTTCAA
1 TTTTAGGGTGTAAGATTCACCGTTGCGACTTTAATCTGTCCCTCTTCGA
* * * *
12932644 TTTTAAGGTGTAAGATTCACCGTTACGGCTTTAATCTAT--C-CTTC-A
1 TTTTAGGGTGTAAGATTCACCGTTGCGACTTTAATCTGTCCCTCTTCGA
* * * *
12932689 GTTTTAGGGTGTAAGATTCATCATTACGACTTTAATTTGTCCCTCTTCGA
1 -TTTTAGGGTGTAAGATTCACCGTTGCGACTTTAATCTGTCCCTCTTCGA
* * ** * * *
12932739 TTTTAGGATGTAAGATTCACCATTATGGCTTTAATATGTCCCTCTTCAA
1 TTTTAGGGTGTAAGATTCACCGTTGCGACTTTAATCTGTCCCTCTTCGA
* * * * * * * * *
12932788 TGTTAAGGTTTAAGATTCACCATTACGGCTTTAATATTTCCCTCTTTGA
1 TTTTAGGGTGTAAGATTCACCGTTGCGACTTTAATCTGTCCCTCTTCGA
***** * * * * *
12932837 TTTTAGGGTGTAAGATTTTTTATTACGGCTTTAATCTTTCCCTTTTTGA
1 TTTTAGGGTGTAAGATTCACCGTTGCGACTTTAATCTGTCCCTCTTCGA
* * ** *
12932886 TTTTAGGATGTAAGATTCACTG-TGACGGTTTTAATCTTTCCCTCTT
1 TTTTAGGGTGTAAGATTCACCGTTG-CGACTTTAATCTGTCCCTCTT
12932932 TGGTTTAGGA
Statistics
Matches: 323, Mismatches: 57, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
45 1 0.00
46 37 0.11
47 1 0.00
48 2 0.01
49 233 0.72
50 49 0.15
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (49 bp):
TTTTAGGGTGTAAGATTCACCGTTGCGACTTTAATCTGTCCCTCTTCGA
Found at i:12932743 original size:144 final size:144
Alignment explanation
Indices: 12932474--12932905 Score: 463
Period size: 144 Copynumber: 2.9 Consensus size: 144
12932464 GTCGTTACGG
* * * * * *
12932474 CTTTAATCTTTCCCTATTTAGTTTTAAGGGTGTAAGATTCACCGTTGCGGCTTTAATCTGTCCCT
1 CTTTAATCTGTCCCTCTTCAATTTTAA-GGTGTAAGATTCACCGTTACGGCTTTAATCTAT-CC-
* * * * * * *
12932539 CTTCGATTTTAGGAGTGTAAGATTCACCGTTGCGATTTTAATCTATCTCTCTTTGATTTTAGGGT
63 CTTCGATTTTAGG-GTGTAAGATTCATCATTACGACTTTAAT-TTTCCCTCTTTGATTTTAGGAT
*** *
12932604 GTAAGATTCAGTGTTGCAA
126 GTAAGATTCACCATTACAA
12932623 CTTTAATCTGTCCCTCTTCAATTTTAAGGTGTAAGATTCACCGTTACGGCTTTAATCTAT-CCTT
1 CTTTAATCTGTCCCTCTTCAATTTTAAGGTGTAAGATTCACCGTTACGGCTTTAATCTATCCCTT
*
12932687 C-AGTTTTAGGGTGTAAGATTCATCATTACGACTTTAATTTGTCCCTCTTCGATTTTAGGATGTA
66 CGA-TTTTAGGGTGTAAGATTCATCATTACGACTTTAATTT-TCCCTCTTTGATTTTAGGATGTA
***
12932751 AGATTCACCATTATGG
129 AGATTCACCATTACAA
* * * * * *
12932767 CTTTAATATGTCCCTCTTCAATGTTAAGGTTTAAGATTCACCATTACGGCTTTAATATTTCCCTC
1 CTTTAATCTGTCCCTCTTCAATTTTAAGGTGTAAGATTCACCGTTACGGCTTTAATCTAT-CC-C
* ** * * *
12932832 TTTGATTTTAGGGTGTAAGATTTTTTATTACGGCTTTAATCTTTCCCTTTTTGATTTTAGGATGT
64 TTCGATTTTAGGGTGTAAGATTCATCATTACGACTTTAAT-TTTCCCTCTTTGATTTTAGGATGT
12932897 AAGATTCAC
128 AAGATTCAC
12932906 TGTGACGGTT
Statistics
Matches: 242, Mismatches: 34, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
143 1 0.00
144 108 0.45
145 11 0.05
146 2 0.01
147 63 0.26
148 34 0.14
149 23 0.10
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (144 bp):
CTTTAATCTGTCCCTCTTCAATTTTAAGGTGTAAGATTCACCGTTACGGCTTTAATCTATCCCTT
CGATTTTAGGGTGTAAGATTCATCATTACGACTTTAATTTTCCCTCTTTGATTTTAGGATGTAAG
ATTCACCATTACAA
Found at i:12932831 original size:98 final size:97
Alignment explanation
Indices: 12932466--12932987 Score: 415
Period size: 98 Copynumber: 5.3 Consensus size: 97
12932456 TAAAATTTGT
* * * * * * *
12932466 CGTTACGGCTTTAATCTTTCCCTATTTAGTTTTAAGGGTGTAAGATTCACCGTTGCGGCTTTAAT
1 CGTTACGGCTTTAATCTAT-CCTCTTCAATTTTAA-GGTGTAAGATTCACCATTACGACTTTAAT
12932531 CTGTCCCTCTTCGATTTTAGGAGTGTAAGATTCAC
64 CTGTCCCTCTTCGATTTTAGGA-TGTAAGATTCAC
* ** ** * *** * *
12932566 CGTTGCGATTTTAATCTATCTCTCTTTGATTTTAGGGTGTAAGATTCAGTGTTGCAACTTTAATC
1 CGTTACGGCTTTAATCTATC-CTCTTCAATTTTAAGGTGTAAGATTCACCATTACGACTTTAATC
*
12932631 TGTCCCTCTTCAATTTTAAGG-TGTAAGATTCAC
65 TGTCCCTCTTCGATTTT-AGGATGTAAGATTCAC
* * * *
12932664 CGTTACGGCTTTAATCTAT-C-CTTCAGTTTTAGGGTGTAAGATTCATCATTACGACTTTAATTT
1 CGTTACGGCTTTAATCTATCCTCTTCAATTTTAAGGTGTAAGATTCACCATTACGACTTTAATCT
12932727 GTCCCTCTTCGATTTTAGGATGTAAGATTCAC
66 GTCCCTCTTCGATTTTAGGATGTAAGATTCAC
* * * * * * * *
12932759 CATTATGGCTTTAATATGTCCCTCTTCAATGTTAAGGTTTAAGATTCACCATTACGGCTTTAATA
1 CGTTACGGCTTTAATCTAT-CCTCTTCAATTTTAAGGTGTAAGATTCACCATTACGACTTTAATC
* * * ***
12932824 TTTCCCTCTTTGATTTTAGGGTGTAAGATTTTT
65 TGTCCCTCTTCGATTTTAGGATGTAAGATTCAC
** * * ** ** * **
12932857 TATTACGGCTTTAATCTTTCCCTTTTTGATTTT-AGGATGTAAGATTCACTGTGACGGTTTTAAT
1 CGTTACGGCTTTAATCTAT-CCTCTTCAATTTTAAGG-TGTAAGATTCACCATTACGACTTTAAT
* * * * **
12932921 CTTTCCCTCTTTG-GTTTAGGATATAAGATTTGC
64 CTGTCCCTCTTCGATTTTAGGATGTAAGATTCAC
* * *
12932954 CGTTACAGCTTTAATCTTTTCCTCTTCAACTTTA
1 CGTTACGGCTTTAATC-TATCCTCTTCAATTTTA
12932988 GGATTTGGTG
Statistics
Matches: 344, Mismatches: 69, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
94 3 0.01
95 76 0.22
96 1 0.00
97 41 0.12
98 152 0.44
99 43 0.12
100 28 0.08
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (97 bp):
CGTTACGGCTTTAATCTATCCTCTTCAATTTTAAGGTGTAAGATTCACCATTACGACTTTAATCT
GTCCCTCTTCGATTTTAGGATGTAAGATTCAC
Found at i:12932975 original size:49 final size:49
Alignment explanation
Indices: 12932467--12932979 Score: 351
Period size: 49 Copynumber: 10.5 Consensus size: 49
12932457 AAAATTTGTC
* * * *
12932467 GTTACGGCTTTAATCTTTCCCTATTT-AGTTTTAAGGGTGTAAGATTCACC
1 GTTACGGCTTTAATCTTTCCCTCTTTGA-TTTT-AGGATGTAAGATTTACT
* * * * *
12932517 GTTGCGGCTTTAATCTGTCCCTCTTCGATTTTAGGAGTGTAAGATTCACC
1 GTTACGGCTTTAATCTTTCCCTCTTTGATTTTAGGA-TGTAAGATTTACT
* ** * * * * *
12932567 GTTGCGATTTTAATCTATCTCTCTTTGATTTTAGGGTGTAAGATTCAGT
1 GTTACGGCTTTAATCTTTCCCTCTTTGATTTTAGGATGTAAGATTTACT
* ** * ** * *
12932616 GTTGCAACTTTAATCTGTCCCTCTTCAATTTTAAGG-TGTAAGATTCACC
1 GTTACGGCTTTAATCTTTCCCTCTTTGATTTT-AGGATGTAAGATTTACT
* ** * *
12932665 GTTACGGCTTTAATCTAT-CCT-TCAG-TTTTAGGGTGTAAGATTCA-T
1 GTTACGGCTTTAATCTTTCCCTCTTTGATTTTAGGATGTAAGATTTACT
* * * * *
12932710 CATTACGACTTTAAT-TTGTCCCTCTTCGATTTTAGGATGTAAGATTCACC
1 -GTTACGGCTTTAATCTT-TCCCTCTTTGATTTTAGGATGTAAGATTTACT
* * * * ** * * * *
12932760 ATTATGGCTTTAATATGTCCCTCTTCAATGTTAAGG-TTTAAGATTCACC
1 GTTACGGCTTTAATCTTTCCCTCTTTGAT-TTTAGGATGTAAGATTTACT
* * * **
12932809 ATTACGGCTTTAATATTTCCCTCTTTGATTTTAGGGTGTAAGATTTTTT
1 GTTACGGCTTTAATCTTTCCCTCTTTGATTTTAGGATGTAAGATTTACT
* * *
12932858 ATTACGGCTTTAATCTTTCCCTTTTTGATTTTAGGATGTAAGATTCACT
1 GTTACGGCTTTAATCTTTCCCTCTTTGATTTTAGGATGTAAGATTTACT
* * * * * *
12932907 GTGACGGTTTTAATCTTTCCCTCTTTG-GTTTAGGATATAAGATTTGCC
1 GTTACGGCTTTAATCTTTCCCTCTTTGATTTTAGGATGTAAGATTTACT
* *
12932955 GTTACAGCTTTAATCTTTTCCTCTT
1 GTTACGGCTTTAATCTTTCCCTCTT
12932980 CAACTTTAGG
Statistics
Matches: 379, Mismatches: 71, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
45 4 0.01
46 28 0.07
47 4 0.01
48 47 0.12
49 217 0.57
50 78 0.21
51 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (49 bp):
GTTACGGCTTTAATCTTTCCCTCTTTGATTTTAGGATGTAAGATTTACT
Found at i:12932975 original size:147 final size:144
Alignment explanation
Indices: 12932470--12932979 Score: 364
Period size: 144 Copynumber: 3.5 Consensus size: 144
12932460 ATTTGTCGTT
* * * * * * * * *
12932470 ACGGCTTTAATCTTTCCCTATTTAGTTTTAAGGGTGTAAGATTCACCGTTGCGGCTTTAATCTGT
1 ACGGCTTTAATATGTCCCT-CTTA-TGTTAA-GGTATAAGATTCACCATTACAGCTTTAATAT-T
* * * * * * * * * *
12932535 CCCTCTTCGATTTTAGGAGTGTAAGATTCACCGTTGCGATTTTAATCTATCTCTCTTTGATTTTA
62 TCCTCTTTGATTTTAGG-GTGTAAGATTCATCATTACGACTTTAATTTGTCCCTCTTCGATTTTA
* ***
12932600 GGGTGTAAGATTCAGTGTTG
126 GGATGTAAGATTCA-CCATG
** * * * * * * *
12932620 -CAACTTTAATCTGTCCCTCTTCAATTTTAAGGTGTAAGATTCACCGTTACGGCTTTAATCTATC
1 ACGGCTTTAATATGTCCCTCTT--ATGTTAAGGTATAAGATTCACCATTACAGCTTTAATATTTC
**
12932684 CT-TCAG-TTTTAGGGTGTAAGATTCATCATTACGACTTTAATTTGTCCCTCTTCGATTTTAGGA
64 CTCTTTGATTTTAGGGTGTAAGATTCATCATTACGACTTTAATTTGTCCCTCTTCGATTTTAGGA
*
12932747 TGTAAGATTCACCATT
129 TGTAAGATTCACCATG
* * *
12932763 ATGGCTTTAATATGTCCCTCTTCAATGTTAAGGTTTAAGATTCACCATTACGGCTTTAATATTTC
1 ACGGCTTTAATATGTCCCTCTT--ATGTTAAGGTATAAGATTCACCATTACAGCTTTAATATTT-
** * * * *
12932828 CCTCTTTGATTTTAGGGTGTAAGATTTTTTATTACGGCTTTAATCTT-TCCCTTTTTGATTTTAG
63 CCTCTTTGATTTTAGGGTGTAAGATTCATCATTACGACTTTAAT-TTGTCCCTCTTCGATTTTAG
**
12932892 GATGTAAGATTCACTGTG
127 GATGTAAGATTCACCATG
* * * * ** * *
12932910 ACGGTTTTAATCTTTCCCTCTT-TGGTTTAGGATATAAGATTTGCCGTTACAGCTTTAATCTTTT
1 ACGGCTTTAATATGTCCCTCTTAT-GTTAAGG-TATAAGATTCACCATTACAGCTTTAAT-ATTT
12932974 CCTCTT
63 CCTCTT
12932980 CAACTTTAGG
Statistics
Matches: 297, Mismatches: 53, Indels: 24
0.79 0.14 0.06
Matches are distributed among these distances:
143 1 0.00
144 107 0.36
145 16 0.05
146 32 0.11
147 85 0.29
148 34 0.11
149 21 0.07
150 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (144 bp):
ACGGCTTTAATATGTCCCTCTTATGTTAAGGTATAAGATTCACCATTACAGCTTTAATATTTCCT
CTTTGATTTTAGGGTGTAAGATTCATCATTACGACTTTAATTTGTCCCTCTTCGATTTTAGGATG
TAAGATTCACCATG
Found at i:12938016 original size:25 final size:26
Alignment explanation
Indices: 12937967--12938016 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
12937957 ATTATTACTA
*
12937967 TTTTATTTATTTTTTATGATGATTTG
1 TTTTATTTATTTTTTATGATAATTTG
12937993 TTTTA-TTATTTTTTTATGA-AATTT
1 TTTTATTTA-TTTTTTATGATAATTT
12938017 AATTCATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (26 bp):
TTTTATTTATTTTTTATGATAATTTG
Found at i:12958770 original size:43 final size:43
Alignment explanation
Indices: 12958513--12958754 Score: 216
Period size: 43 Copynumber: 5.8 Consensus size: 43
12958503 ACGAATCATA
*
12958513 AGTCTTCCTTTT-TA-ACATATTCTCATGCTCATTTCGAGTCACG
1 AGTCTTCCTTTTATATA-A-ATTCTCATGCTCATTCCGAGTCACG
* * * * * * * * *
12958556 AATCTT-CTTTT-GACACATTCTCATTCTTATCCCGAGACATG
1 AGTCTTCCTTTTATATAAATTCTCATGCTCATTCCGAGTCACG
* * * * * * *
12958597 AGTC--CC-TTTA-ACACATTCTCATTCTTATCCCGAGACATG
1 AGTCTTCCTTTTATATAAATTCTCATGCTCATTCCGAGTCACG
** *
12958636 AGTCTT-CTTTTA-ATATTTTCTCATGCTCATTCTGAGTCACG
1 AGTCTTCCTTTTATATAAATTCTCATGCTCATTCCGAGTCACG
12958677 AGTCTTCCTTTTATATAAATTCTCATGCTCATTCCGAGTCACG
1 AGTCTTCCTTTTATATAAATTCTCATGCTCATTCCGAGTCACG
12958720 AGTCTTCCTTTTATATAAATTCTCATGCTCATTCC
1 AGTCTTCCTTTTATATAAATTCTCATGCTCATTCC
12958755 AAATCATAAG
Statistics
Matches: 169, Mismatches: 22, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
39 36 0.21
40 2 0.01
41 52 0.31
42 12 0.07
43 67 0.40
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (43 bp):
AGTCTTCCTTTTATATAAATTCTCATGCTCATTCCGAGTCACG
Found at i:12965335 original size:43 final size:42
Alignment explanation
Indices: 12965243--12965347 Score: 103
Period size: 41 Copynumber: 2.6 Consensus size: 42
12965233 AGATTCATGT
* * *
12965243 GTCTTCCTTTTTAACA-A-TCTTATGCTCTATTGAGTCATAA
1 GTCTTCCTTTTTAACATATTCTCACGCTCTATTGAGTCACAA
* *
12965283 ATCTTCCTTTTTAACATATTCTCACGCT-TATTTCGAGTCACGA
1 GTCTTCCTTTTTAACATATTCTCACGCTCTA-TT-GAGTCACAA
*
12965326 GTCTTCC--TTTAACGTATTCTCA
1 GTCTTCCTTTTTAACATATTCTCA
12965348 TTCTCATCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
40 15 0.28
41 17 0.31
42 9 0.17
43 13 0.24
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.44
Consensus pattern (42 bp):
GTCTTCCTTTTTAACATATTCTCACGCTCTATTGAGTCACAA
Done.